diff options
| -rw-r--r-- | lib/spack/docs/tutorial_basics.rst | 1414 | ||||
| -rw-r--r-- | lib/spack/docs/tutorial_modules.rst | 674 | ||||
| -rw-r--r-- | lib/spack/docs/tutorial_packaging.rst | 209 |
3 files changed, 1149 insertions, 1148 deletions
diff --git a/lib/spack/docs/tutorial_basics.rst b/lib/spack/docs/tutorial_basics.rst index d0ca3a4eba..50c072c08e 100644 --- a/lib/spack/docs/tutorial_basics.rst +++ b/lib/spack/docs/tutorial_basics.rst @@ -28,22 +28,24 @@ Installing Spack ---------------- Spack works out of the box. Simply clone spack and get going. We will -clone Spack and immediately checkout the most recent release, v0.11.2. +clone Spack and immediately checkout the most recent release, v0.12. .. code-block:: console $ git clone https://github.com/spack/spack + git clone https://github.com/spack/spack Cloning into 'spack'... - remote: Counting objects: 94561, done. - remote: Compressing objects: 100% (121/121), done. - remote: Total 94561 (delta 91), reused 121 (delta 48), pack-reused 94368 - Receiving objects: 100% (94561/94561), 32.44 MiB | 31.88 MiB/s, done. - Resolving deltas: 100% (44914/44914), done. + remote: Enumerating objects: 68, done. + remote: Counting objects: 100% (68/68), done. + remote: Compressing objects: 100% (56/56), done. + remote: Total 135389 (delta 40), reused 16 (delta 9), pack-reused 135321 + Receiving objects: 100% (135389/135389), 47.31 MiB | 1.01 MiB/s, done. + Resolving deltas: 100% (64414/64414), done. Checking connectivity... done. $ cd spack - $ git checkout releases/v0.11.2 - Branch releases/v0.11.2 set up to track remote branch releases/v0.11.2 from origin. - Switched to a new branch 'releases/v0.11.2' + $ git checkout releases/v0.12 + Branch releases/v0.12 set up to track remote branch releases/v0.12 from origin. + Switched to a new branch 'releases/v0.12' Next add Spack to your path. Spack has some nice command line integration tools, so instead of simply appending to your ``PATH`` @@ -64,10 +66,10 @@ The ``spack list`` command shows available packages. .. code-block:: console $ spack list - ==> 2177 packages. - abinit libepoxy py-html5lib r-ncdf4 - abyss libevent py-httpbin r-network - ack libevpath py-hypothesis r-networkd3abinit + ==> 2907 packages. + abinit libgpuarray py-espresso r-mlrmbo + abyss libgridxc py-espressopp r-mmwrweek + accfft libgtextutils py-et-xmlfile r-mnormt ... The ``spack list`` command can also take a query string. Spack @@ -77,10 +79,10 @@ we can view all available python packages. .. code-block:: console $ spack list py- - ==> 356 packages. - py-3to2 py-functools32 py-numpydoc py-pywavelets - py-4suite-xml py-future py-olefile py-pyyaml - py-abipy py-futures py-ont-fast5-api py-qtawesome + ==> 479 packages. + lumpy-sv py-funcsigs py-numpydoc py-utililib + perl-file-copy-recursive py-functools32 py-olefile py-pywavelets + py-3to2 py-future py-ont-fast5-api py-pyyaml ... ------------------- @@ -94,43 +96,42 @@ software, simply type ``spack install <package_name>``. $ spack install zlib ==> Installing zlib - ==> Fetching file:///home/ubuntu/becker/buildcache/zlib/zlib-1.2.11.tar.gz - curl: (37) Couldn't open file /home/ubuntu/becker/buildcache/zlib/zlib-1.2.11.tar.gz - ==> Fetching from file:///home/ubuntu/becker/buildcache/zlib/zlib-1.2.11.tar.gz failed. + ==> Searching for binary cache of zlib + ==> Warning: No Spack mirrors are currently configured + ==> No binary for zlib found: installing from source ==> Fetching http://zlib.net/fossils/zlib-1.2.11.tar.gz ######################################################################## 100.0% - ==> Staging archive: /home/ubuntu/test/spack/var/spack/stage/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb/zlib-1.2.11.tar.gz - ==> Created stage in /home/ubuntu/test/spack/var/spack/stage/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb + ==> Staging archive: /home/spack1/spack/var/spack/stage/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb/zlib-1.2.11.tar.gz + ==> Created stage in /home/spack1/spack/var/spack/stage/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb ==> No patches needed for zlib ==> Building zlib [Package] ==> Executing phase: 'install' ==> Successfully installed zlib - Fetch: 0.58s. Build: 1.15s. Total: 1.73s. - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb + Fetch: 3.27s. Build: 2.18s. Total: 5.44s. + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb Spack can install software either from source or from a binary cache. Packages in the binary cache are signed with GPG for security. For the tutorial we have prepared a binary cache so you don't have to wait on slow compilation from source. To be able to -install from the binary cache, we will need to trust the GPG key that -the binary cache was prepared with. +install from the binary cache, we will need to configure Spack with +the location of the binary cache and trust the GPG key that the binary +cache was signed with. .. code-block:: console - $ spack gpg trust /opt/public.key - gpg: keybox '/home/ubuntu/test/spack/opt/spack/gpg/pubring.kbx' created - gpg: /home/ubuntu/test/spack/opt/spack/gpg/trustdb.gpg: trustdb created + $ spack mirror add tutorial /mirror + $ spack gpg trust /mirror/public.key + gpg: keybox '/home/spack1/spack/opt/spack/gpg/pubring.kbx' created + gpg: /home/spack1/spack/opt/spack/gpg/trustdb.gpg: trustdb created gpg: key 3B7C69B2: public key "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" imported gpg: Total number processed: 1 gpg: imported: 1 -The AWS instances and Docker images we use for the tutorial already -have configuration files in place so that Spack knows where to look -for binary packages (and that's the only change we've made). You'll -learn more about configuring Spack later in the tutorial, but for now -you will be able to install the rest of the packages in the tutorial -from a binary cache by specifying ``spack install --use-cache -<package_name>``. This will install the binary cached version if it +You'll learn more about configuring Spack later in the tutorial, but +for now you will be able to install the rest of the packages in the +tutorial from a binary cache using the same ``spack install`` +command. By default this will install the binary cached version if it exists and fall back on installing from source. Spack's spec syntax is the interface by which we can request specific @@ -139,24 +140,28 @@ compilers. .. code-block:: console - $ spack install --use-cache zlib %clang - ... - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-4.7-libsigsegv-2.11-eaqxu5mka32jpjif32rttiwebimrr2kb.spec.yaml + $ spack install zlib %clang + ==> Installing zlib + ==> Searching for binary cache of zlib + ==> Finding buildcaches in /mirror/build_cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64-gcc-7.2.0-texinfo-6.5-cuqnfgfhhmudqp5f7upmld6ax7pratzw.spec.yaml ######################################################################## 100.0% - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-util-macros-1.19.1-milz7fmttmptcic2qdk5cnel7ll5sybr.spec.yaml + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64-gcc-4.7-zlib-1.2.11-bq2wtdxakpjytk2tjr7qu23i4py2fi2r.spec.yaml ######################################################################## 100.0% + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-dyninst-9.3.2-bu6s2jzievsjkwtcnrtimc5b625j5omf.spec.yaml + ######################################################################## 100.0% + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64-gcc-7.2.0-openmpi-3.1.3-do5xfer2whhk7gc26atgs3ozr3ljbvs4.spec.yaml + ... ==> Installing zlib from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/zlib-1.2.11/linux-ubuntu16.04-x86_64-clang-3.8.0-2ubuntu4-zlib-1.2.11-4pt75q7qq6lygf3hgnona4lyc2uwedul.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/zlib-1.2.11/linux-ubuntu16.04-x86_64-clang-3.8.0-2ubuntu4-zlib-1.2.11-4pt75q7qq6lygf3hgnona4lyc2uwedul.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:05:02 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:08:01 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed zlib from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/zlib-1.2.11-4pt75q7qq6lygf3hgnona4lyc2uwedul + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/zlib-1.2.11-4pt75q7qq6lygf3hgnona4lyc2uwedul Note that this installation is located separately from the previous one. We will discuss this in more detail later, but this is part of what @@ -180,43 +185,35 @@ compilers. .. code-block:: console - $ spack install --use-cache zlib@1.2.8 + $ spack install zlib@1.2.8 ==> Installing zlib ==> Searching for binary cache of zlib - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-clang-3.8.0-2ubuntu4-zlib-1.2.11-4pt75q7qq6lygf3hgnona4lyc2uwedul.spec.yaml - ######################################################################## 100.0% + ==> Finding buildcaches in /mirror/build_cache ==> Installing zlib from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8/linux-ubuntu16.04-x86_64-gcc-5.4.0-zlib-1.2.8-bkyl5bhuep6fmhuxzkmhqy25qefjcvzc.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8/linux-ubuntu16.04-x86_64-gcc-5.4.0-zlib-1.2.8-bkyl5bhuep6fmhuxzkmhqy25qefjcvzc.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:05:03 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:18:30 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed zlib from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8-bkyl5bhuep6fmhuxzkmhqy25qefjcvzc + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8-bkyl5bhuep6fmhuxzkmhqy25qefjcvzc - $ spack install --use-cache zlib %gcc@4.7 + $ spack install zlib %gcc@4.7 ==> Installing zlib ==> Searching for binary cache of zlib - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-zlib-1.2.8-bkyl5bhuep6fmhuxzkmhqy25qefjcvzc.spec.yaml - ######################################################################## 100.0% + ==> Finding buildcaches in /mirror/build_cache ==> Installing zlib from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-4.7/zlib-1.2.11/linux-ubuntu16.04-x86_64-gcc-4.7-zlib-1.2.11-bq2wtdxakpjytk2tjr7qu23i4py2fi2r.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-4.7/zlib-1.2.11/linux-ubuntu16.04-x86_64-gcc-4.7-zlib-1.2.11-bq2wtdxakpjytk2tjr7qu23i4py2fi2r.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:03:00 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 04:55:30 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed zlib from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-4.7/zlib-1.2.11-bq2wtdxakpjytk2tjr7qu23i4py2fi2r + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-4.7/zlib-1.2.11-bq2wtdxakpjytk2tjr7qu23i4py2fi2r The spec syntax also includes compiler flags. Spack accepts ``cppflags``, ``cflags``, ``cxxflags``, ``fflags``, ``ldflags``, and @@ -226,24 +223,20 @@ into the compile line automatically by the Spack compiler wrappers. .. code-block:: console - $ spack install --use-cache zlib @1.2.8 cppflags=-O3 + $ spack install zlib @1.2.8 cppflags=-O3 ==> Installing zlib ==> Searching for binary cache of zlib - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-4.7-zlib-1.2.11-bq2wtdxakpjytk2tjr7qu23i4py2fi2r.spec.yaml - ######################################################################## 100.0% + ==> Finding buildcaches in /mirror/build_cache ==> Installing zlib from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8/linux-ubuntu16.04-x86_64-gcc-5.4.0-zlib-1.2.8-64mns5mvdacqvlashkf7v6lqrxixhmxu.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8/linux-ubuntu16.04-x86_64-gcc-5.4.0-zlib-1.2.8-64mns5mvdacqvlashkf7v6lqrxixhmxu.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:03:00 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:31:54 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed zlib from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8-64mns5mvdacqvlashkf7v6lqrxixhmxu + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8-64mns5mvdacqvlashkf7v6lqrxixhmxu The ``spack find`` command is used to query installed packages. Note that some packages appear identical with the default output. The ``-l`` flag @@ -291,25 +284,21 @@ existing package's hash matches the desired spec. .. code-block:: console - $ spack install --use-cache openssl - ==> zlib is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb - ==> Installing openssl - ==> Searching for binary cache of openssl - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-zlib-1.2.8-64mns5mvdacqvlashkf7v6lqrxixhmxu.spec.yaml - ######################################################################## 100.0% - ==> Installing openssl from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/openssl-1.0.2k/linux-ubuntu16.04-x86_64-gcc-5.4.0-openssl-1.0.2k-2woov64m3n4gjtnfp722qcyemzf2qtom.spack + $ spack install tcl + ==> zlib is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb + ==> Installing tcl + ==> Searching for binary cache of tcl + ==> Finding buildcaches in /mirror/build_cache + ==> Installing tcl from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/tcl-8.6.8/linux-ubuntu16.04-x86_64-gcc-5.4.0-tcl-8.6.8-qhwyccywhx2i6s7ob2gvjrjtj3rnfuqt.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:03:18 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:07:15 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed openssl from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openssl-1.0.2k-2woov64m3n4gjtnfp722qcyemzf2qtom + ==> Successfully installed tcl from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/tcl-8.6.8-qhwyccywhx2i6s7ob2gvjrjtj3rnfuqt Dependencies can be explicitly requested using the ``^`` sigil. Note that the spec syntax is recursive. Anything we could specify about the @@ -317,38 +306,32 @@ top-level package, we can also specify about a dependency using ``^``. .. code-block:: console - $ spack install --use-cache openssl ^zlib @1.2.8 %clang + $ spack install tcl ^zlib @1.2.8 %clang ==> Installing zlib ==> Searching for binary cache of zlib - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-openssl-1.0.2k-2woov64m3n4gjtnfp722qcyemzf2qtom.spec.yaml - ######################################################################## 100.0% + ==> Finding buildcaches in /mirror/build_cache ==> Installing zlib from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/zlib-1.2.8/linux-ubuntu16.04-x86_64-clang-3.8.0-2ubuntu4-zlib-1.2.8-i426yu3o6lyau5fv5ljwsajfkqxj5rl5.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/zlib-1.2.8/linux-ubuntu16.04-x86_64-clang-3.8.0-2ubuntu4-zlib-1.2.8-i426yu3o6lyau5fv5ljwsajfkqxj5rl5.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:03:06 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:09:01 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed zlib from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/zlib-1.2.8-i426yu3o6lyau5fv5ljwsajfkqxj5rl5 - ==> Installing openssl - ==> Searching for binary cache of openssl - ==> Installing openssl from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/openssl-1.0.2k/linux-ubuntu16.04-x86_64-clang-3.8.0-2ubuntu4-openssl-1.0.2k-ufruk7kj2fz3oupuat2jbgc2y7hg37vy.spack + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/zlib-1.2.8-i426yu3o6lyau5fv5ljwsajfkqxj5rl5 + ==> Installing tcl + ==> Searching for binary cache of tcl + ==> Installing tcl from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/tcl-8.6.8/linux-ubuntu16.04-x86_64-clang-3.8.0-2ubuntu4-tcl-8.6.8-6wc66etr7y6hgibp2derrdkf763exwvc.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:03:23 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:10:21 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed openssl from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/openssl-1.0.2k-ufruk7kj2fz3oupuat2jbgc2y7hg37vy + ==> Successfully installed tcl from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/tcl-8.6.8-6wc66etr7y6hgibp2derrdkf763exwvc Packages can also be referred to from the command line by their package hash. Using the ``spack find -lf`` command earlier we saw that the hash @@ -362,27 +345,21 @@ packages share the prefix) then spack will report an error. .. code-block:: console - $ spack install --use-cache openssl ^/64mn - ==> zlib is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8-64mns5mvdacqvlashkf7v6lqrxixhmxu - ==> Installing openssl - ==> Searching for binary cache of openssl - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-clang-3.8.0-2ubuntu4-zlib-1.2.8-i426yu3o6lyau5fv5ljwsajfkqxj5rl5.spec.yaml - ######################################################################## 100.0% - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-clang-3.8.0-2ubuntu4-openssl-1.0.2k-ufruk7kj2fz3oupuat2jbgc2y7hg37vy.spec.yaml - ######################################################################## 100.0% - ==> Installing openssl from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/openssl-1.0.2k/linux-ubuntu16.04-x86_64-gcc-5.4.0-openssl-1.0.2k-gyxmhgbam26d7y42omb7xrvkjjgmzwio.spack + $ spack install tcl ^/64mn + ==> zlib is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8-64mns5mvdacqvlashkf7v6lqrxixhmxu + ==> Installing tcl + ==> Searching for binary cache of tcl + ==> Finding buildcaches in /mirror/build_cache + ==> Installing tcl from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/tcl-8.6.8/linux-ubuntu16.04-x86_64-gcc-5.4.0-tcl-8.6.8-am4pbatrtga3etyusg2akmsvrswwxno2.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:03:12 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:11:53 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed openssl from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openssl-1.0.2k-gyxmhgbam26d7y42omb7xrvkjjgmzwio + ==> Successfully installed tcl from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/tcl-8.6.8-am4pbatrtga3etyusg2akmsvrswwxno2 The ``spack find`` command can also take a ``-d`` flag, which can show dependency information. Note that each package has a top-level entry, @@ -391,9 +368,9 @@ even if it also appears as a dependency. .. code-block:: console $ spack find -ldf - ==> 9 installed packages. + ==> 9 installed packages -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- - ufruk7k openssl@1.0.2k%clang + 6wc66et tcl@8.6.8%clang i426yu3 ^zlib@1.2.8%clang i426yu3 zlib@1.2.8%clang @@ -406,10 +383,10 @@ even if it also appears as a dependency. -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- - gyxmhgb openssl@1.0.2k%gcc + am4pbat tcl@8.6.8%gcc 64mns5m ^zlib@1.2.8%gcc cppflags="-O3" - 2woov64 openssl@1.0.2k%gcc + qhwyccy tcl@8.6.8%gcc 5nus6kn ^zlib@1.2.11%gcc bkyl5bh zlib@1.2.8%gcc @@ -425,197 +402,250 @@ we install it "out of the box," it will build with ``openmpi``. .. code-block:: console - $ spack install --use-cache hdf5 + $ spack install hdf5 ==> Installing libsigsegv ==> Searching for binary cache of libsigsegv - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-openssl-1.0.2k-gyxmhgbam26d7y42omb7xrvkjjgmzwio.spec.yaml - ######################################################################## 100.0% + ==> Finding buildcaches in /mirror/build_cache ==> Installing libsigsegv from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/libsigsegv-2.11/linux-ubuntu16.04-x86_64-gcc-5.4.0-libsigsegv-2.11-fypapcprssrj3nstp6njprskeyynsgaz.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/libsigsegv-2.11/linux-ubuntu16.04-x86_64-gcc-5.4.0-libsigsegv-2.11-fypapcprssrj3nstp6njprskeyynsgaz.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:21:10 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:08:01 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed libsigsegv from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libsigsegv-2.11-fypapcprssrj3nstp6njprskeyynsgaz + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libsigsegv-2.11-fypapcprssrj3nstp6njprskeyynsgaz ==> Installing m4 ==> Searching for binary cache of m4 ==> Installing m4 from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/m4-1.4.18/linux-ubuntu16.04-x86_64-gcc-5.4.0-m4-1.4.18-r5envx3kqctwwflhd4qax4ahqtt6x43a.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/m4-1.4.18/linux-ubuntu16.04-x86_64-gcc-5.4.0-m4-1.4.18-suf5jtcfehivwfesrc5hjy72r4nukyel.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:22:03 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:24:11 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed m4 from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/m4-1.4.18-r5envx3kqctwwflhd4qax4ahqtt6x43a + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/m4-1.4.18-suf5jtcfehivwfesrc5hjy72r4nukyel ==> Installing libtool ==> Searching for binary cache of libtool ==> Installing libtool from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/libtool-2.4.6/linux-ubuntu16.04-x86_64-gcc-5.4.0-libtool-2.4.6-o2pfwjf44353ajgr42xqtvzyvqsazkgu.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/libtool-2.4.6/linux-ubuntu16.04-x86_64-gcc-5.4.0-libtool-2.4.6-o2pfwjf44353ajgr42xqtvzyvqsazkgu.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:29:09 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:12:47 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed libtool from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libtool-2.4.6-o2pfwjf44353ajgr42xqtvzyvqsazkgu - ==> Installing pkg-config - ==> Searching for binary cache of pkg-config - ==> Installing pkg-config from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/pkg-config-0.29.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-pkg-config-0.29.2-ae2hwm7q57byfbxtymts55xppqwk7ecj.spack + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libtool-2.4.6-o2pfwjf44353ajgr42xqtvzyvqsazkgu + ==> Installing pkgconf + ==> Searching for binary cache of pkgconf + ==> Installing pkgconf from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/pkgconf-1.4.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-pkgconf-1.4.2-fovrh7alpft646n6mhis5mml6k6e5f4v.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:30:13 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:00:47 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed pkg-config from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pkg-config-0.29.2-ae2hwm7q57byfbxtymts55xppqwk7ecj + ==> Successfully installed pkgconf from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pkgconf-1.4.2-fovrh7alpft646n6mhis5mml6k6e5f4v ==> Installing util-macros ==> Searching for binary cache of util-macros ==> Installing util-macros from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/util-macros-1.19.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-util-macros-1.19.1-milz7fmttmptcic2qdk5cnel7ll5sybr.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/util-macros-1.19.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-util-macros-1.19.1-milz7fmttmptcic2qdk5cnel7ll5sybr.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:30:12 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:31:54 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed util-macros from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/util-macros-1.19.1-milz7fmttmptcic2qdk5cnel7ll5sybr + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/util-macros-1.19.1-milz7fmttmptcic2qdk5cnel7ll5sybr ==> Installing libpciaccess ==> Searching for binary cache of libpciaccess ==> Installing libpciaccess from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/libpciaccess-0.13.5/linux-ubuntu16.04-x86_64-gcc-5.4.0-libpciaccess-0.13.5-5urc6tcjae26fbbd2wyfohoszhgxtbmc.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/libpciaccess-0.13.5/linux-ubuntu16.04-x86_64-gcc-5.4.0-libpciaccess-0.13.5-5urc6tcjae26fbbd2wyfohoszhgxtbmc.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:30:23 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:09:34 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed libpciaccess from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libpciaccess-0.13.5-5urc6tcjae26fbbd2wyfohoszhgxtbmc + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libpciaccess-0.13.5-5urc6tcjae26fbbd2wyfohoszhgxtbmc ==> Installing xz ==> Searching for binary cache of xz ==> Installing xz from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/xz-5.2.3/linux-ubuntu16.04-x86_64-gcc-5.4.0-xz-5.2.3-htnq7wqdrqtof6uxqicdj3f7oe3xz6pw.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/xz-5.2.4/linux-ubuntu16.04-x86_64-gcc-5.4.0-xz-5.2.4-teneqii2xv5u6zl5r6qi3pwurc6pmypz.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:30:34 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:05:03 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed xz from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/xz-5.2.3-htnq7wqdrqtof6uxqicdj3f7oe3xz6pw - ==> zlib is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/xz-5.2.4-teneqii2xv5u6zl5r6qi3pwurc6pmypz + ==> zlib is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb ==> Installing libxml2 ==> Searching for binary cache of libxml2 ==> Installing libxml2 from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/libxml2-2.9.4/linux-ubuntu16.04-x86_64-gcc-5.4.0-libxml2-2.9.4-sxk64lvcxhqjflzesnf3ye4wakovwi45.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/libxml2-2.9.8/linux-ubuntu16.04-x86_64-gcc-5.4.0-libxml2-2.9.8-wpexsphdmfayxqxd4up5vgwuqgu5woo7.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:30:23 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 04:56:04 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed libxml2 from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libxml2-2.9.4-sxk64lvcxhqjflzesnf3ye4wakovwi45 + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libxml2-2.9.8-wpexsphdmfayxqxd4up5vgwuqgu5woo7 + ==> Installing ncurses + ==> Searching for binary cache of ncurses + ==> Installing ncurses from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/ncurses-6.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-ncurses-6.1-3o765ourmesfrji6yeclb4wb5w54aqbh.spack + ######################################################################## 100.0% + gpg: Signature made Sat Nov 10 05:04:49 2018 UTC using RSA key ID 3B7C69B2 + gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] + gpg: WARNING: This key is not certified with a trusted signature! + gpg: There is no indication that the signature belongs to the owner. + Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 + ==> Successfully installed ncurses from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/ncurses-6.1-3o765ourmesfrji6yeclb4wb5w54aqbh + ==> Installing readline + ==> Searching for binary cache of readline + ==> Installing readline from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/readline-7.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-readline-7.0-nxhwrg7xwc6nbsm2v4ezwe63l6nfidbi.spack + ######################################################################## 100.0% + gpg: Signature made Sat Nov 10 05:04:56 2018 UTC using RSA key ID 3B7C69B2 + gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] + gpg: WARNING: This key is not certified with a trusted signature! + gpg: There is no indication that the signature belongs to the owner. + Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 + ==> Successfully installed readline from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/readline-7.0-nxhwrg7xwc6nbsm2v4ezwe63l6nfidbi + ==> Installing gdbm + ==> Searching for binary cache of gdbm + ==> Installing gdbm from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/gdbm-1.14.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-gdbm-1.14.1-q4fpyuo7ouhkeq6d3oabtrppctpvxmes.spack + ######################################################################## 100.0% + gpg: Signature made Sat Nov 10 05:18:34 2018 UTC using RSA key ID 3B7C69B2 + gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] + gpg: WARNING: This key is not certified with a trusted signature! + gpg: There is no indication that the signature belongs to the owner. + Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 + ==> Successfully installed gdbm from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gdbm-1.14.1-q4fpyuo7ouhkeq6d3oabtrppctpvxmes + ==> Installing perl + ==> Searching for binary cache of perl + ==> Installing perl from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/perl-5.26.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-perl-5.26.2-ic2kyoadgp3dxfejcbllyplj2wf524fo.spack + ######################################################################## 100.0% + gpg: Signature made Sat Nov 10 05:12:45 2018 UTC using RSA key ID 3B7C69B2 + gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] + gpg: WARNING: This key is not certified with a trusted signature! + gpg: There is no indication that the signature belongs to the owner. + Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 + ==> Successfully installed perl from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/perl-5.26.2-ic2kyoadgp3dxfejcbllyplj2wf524fo + ==> Installing autoconf + ==> Searching for binary cache of autoconf + ==> Installing autoconf from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/autoconf-2.69/linux-ubuntu16.04-x86_64-gcc-5.4.0-autoconf-2.69-3sx2gxeibc4oasqd4o5h6lnwpcpsgd2q.spack + ######################################################################## 100.0% + gpg: Signature made Sat Nov 10 05:24:03 2018 UTC using RSA key ID 3B7C69B2 + gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] + gpg: WARNING: This key is not certified with a trusted signature! + gpg: There is no indication that the signature belongs to the owner. + Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 + ==> Successfully installed autoconf from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/autoconf-2.69-3sx2gxeibc4oasqd4o5h6lnwpcpsgd2q + ==> Installing automake + ==> Searching for binary cache of automake + ==> Installing automake from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/automake-1.16.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-automake-1.16.1-rymw7imfehycqxzj4nuy2oiw3abegooy.spack + ######################################################################## 100.0% + gpg: Signature made Sat Nov 10 05:12:03 2018 UTC using RSA key ID 3B7C69B2 + gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] + gpg: WARNING: This key is not certified with a trusted signature! + gpg: There is no indication that the signature belongs to the owner. + Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 + ==> Successfully installed automake from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/automake-1.16.1-rymw7imfehycqxzj4nuy2oiw3abegooy + ==> Installing numactl + ==> Searching for binary cache of numactl + ==> Installing numactl from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/numactl-2.0.11/linux-ubuntu16.04-x86_64-gcc-5.4.0-numactl-2.0.11-ft463odrombnxlc3qew4omckhlq7tqgc.spack + ######################################################################## 100.0% + gpg: Signature made Sat Nov 10 05:30:34 2018 UTC using RSA key ID 3B7C69B2 + gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] + gpg: WARNING: This key is not certified with a trusted signature! + gpg: There is no indication that the signature belongs to the owner. + Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 + ==> Successfully installed numactl from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/numactl-2.0.11-ft463odrombnxlc3qew4omckhlq7tqgc ==> Installing hwloc ==> Searching for binary cache of hwloc ==> Installing hwloc from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hwloc-1.11.8/linux-ubuntu16.04-x86_64-gcc-5.4.0-hwloc-1.11.8-ivg4d2e6anxwin4zbld2g4qlrbuquoyg.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hwloc-1.11.9/linux-ubuntu16.04-x86_64-gcc-5.4.0-hwloc-1.11.9-43tkw5mt6huhv37vqnybqgxtkodbsava.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:30:32 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:08:00 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed hwloc from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hwloc-1.11.8-ivg4d2e6anxwin4zbld2g4qlrbuquoyg + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hwloc-1.11.9-43tkw5mt6huhv37vqnybqgxtkodbsava ==> Installing openmpi ==> Searching for binary cache of openmpi ==> Installing openmpi from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.1.3/linux-ubuntu16.04-x86_64-gcc-5.4.0-openmpi-3.1.3-3njc4q5pqdpptq6jvqjrezkffwokv2sx.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:43:34 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:01:54 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed openmpi from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.1.3-3njc4q5pqdpptq6jvqjrezkffwokv2sx ==> Installing hdf5 ==> Searching for binary cache of hdf5 ==> Installing hdf5 from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-hdf5-1.10.1-bovz45ms24pmfr7hlckf56bxegfc4rea.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4/linux-ubuntu16.04-x86_64-gcc-5.4.0-hdf5-1.10.4-ozyvmhzdew66byarohm4p36ep7wtcuiw.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:53:08 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:23:04 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed hdf5 from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1-bovz45ms24pmfr7hlckf56bxegfc4rea + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4-ozyvmhzdew66byarohm4p36ep7wtcuiw -Spack packages can also have variants. Boolean variants can be specified -using the ``+`` and ``~`` or ``-`` sigils. There are two sigils for -``False`` to avoid conflicts with shell parsing in different -situations. Variants (boolean or otherwise) can also be specified using -the same syntax as compiler flags. Here we can install HDF5 without MPI -support. +Spack packages can also have build options, called variants. Boolean +variants can be specified using the ``+`` and ``~`` or ``-`` +sigils. There are two sigils for ``False`` to avoid conflicts with +shell parsing in different situations. Variants (boolean or otherwise) +can also be specified using the same syntax as compiler flags. Here +we can install HDF5 without MPI support. .. code-block:: console - $ spack install --use-cache hdf5~mpi - ==> zlib is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb + $ spack install hdf5~mpi + ==> zlib is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb ==> Installing hdf5 ==> Searching for binary cache of hdf5 - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f.spec.yaml - ######################################################################## 100.0% - ... - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-util-macros-1.19.1-milz7fmttmptcic2qdk5cnel7ll5sybr.spec.yaml - ######################################################################## 100.0% + ==> Finding buildcaches in /mirror/build_cache ==> Installing hdf5 from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-hdf5-1.10.1-pa6oqzfeqzkqkzqr2375fqyt3qggx3tr.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4/linux-ubuntu16.04-x86_64-gcc-5.4.0-hdf5-1.10.4-5vcv5r67vpjzenq4apyebshclelnzuja.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:53:40 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:23:24 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed hdf5 from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1-pa6oqzfeqzkqkzqr2375fqyt3qggx3tr + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4-5vcv5r67vpjzenq4apyebshclelnzuja We might also want to install HDF5 with a different MPI implementation. While MPI is not a package itself, packages can depend on @@ -632,48 +662,76 @@ by any of several providers. .. code-block:: console - $ spack install --use-cache hdf5+hl+mpi ^mpich + $ spack install hdf5+hl+mpi ^mpich + ==> libsigsegv is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libsigsegv-2.11-fypapcprssrj3nstp6njprskeyynsgaz + ==> m4 is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/m4-1.4.18-suf5jtcfehivwfesrc5hjy72r4nukyel + ==> pkgconf is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pkgconf-1.4.2-fovrh7alpft646n6mhis5mml6k6e5f4v + ==> ncurses is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/ncurses-6.1-3o765ourmesfrji6yeclb4wb5w54aqbh + ==> readline is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/readline-7.0-nxhwrg7xwc6nbsm2v4ezwe63l6nfidbi + ==> gdbm is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gdbm-1.14.1-q4fpyuo7ouhkeq6d3oabtrppctpvxmes + ==> perl is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/perl-5.26.2-ic2kyoadgp3dxfejcbllyplj2wf524fo + ==> autoconf is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/autoconf-2.69-3sx2gxeibc4oasqd4o5h6lnwpcpsgd2q + ==> automake is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/automake-1.16.1-rymw7imfehycqxzj4nuy2oiw3abegooy + ==> libtool is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libtool-2.4.6-o2pfwjf44353ajgr42xqtvzyvqsazkgu + ==> Installing texinfo + ==> Searching for binary cache of texinfo + ==> Finding buildcaches in /mirror/build_cache + ==> Installing texinfo from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/texinfo-6.5/linux-ubuntu16.04-x86_64-gcc-5.4.0-texinfo-6.5-zs7a2pcwhq6ho2cj2x26uxfktwkpyucn.spack + ######################################################################## 100.0% + gpg: Signature made Sat Nov 10 05:18:29 2018 UTC using RSA key ID 3B7C69B2 + gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] + gpg: WARNING: This key is not certified with a trusted signature! + gpg: There is no indication that the signature belongs to the owner. + Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 + ==> Successfully installed texinfo from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/texinfo-6.5-zs7a2pcwhq6ho2cj2x26uxfktwkpyucn + ==> Installing findutils + ==> Searching for binary cache of findutils + ==> Installing findutils from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/findutils-4.6.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-findutils-4.6.0-d4iajxsopzrlcjtasahxqeyjkjv5jx4v.spack + ######################################################################## 100.0% + gpg: Signature made Sat Nov 10 05:07:17 2018 UTC using RSA key ID 3B7C69B2 + gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] + gpg: WARNING: This key is not certified with a trusted signature! + gpg: There is no indication that the signature belongs to the owner. + Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 + ==> Successfully installed findutils from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/findutils-4.6.0-d4iajxsopzrlcjtasahxqeyjkjv5jx4v ==> Installing mpich ==> Searching for binary cache of mpich - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-hdf5-1.10.1-pa6oqzfeqzkqkzqr2375fqyt3qggx3tr.spec.yaml - ######################################################################## 100.0% ==> Installing mpich from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpich-3.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-mpich-3.2-cymrnoowcc4vdyvdnf5ypvob4cmdadk5.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpich-3.2.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-mpich-3.2.1-p3f7p2r5ntrynqibosglxvhwyztiwqs5.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:45:26 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:23:57 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed mpich from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpich-3.2-cymrnoowcc4vdyvdnf5ypvob4cmdadk5 - ==> zlib is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpich-3.2.1-p3f7p2r5ntrynqibosglxvhwyztiwqs5 + ==> zlib is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb ==> Installing hdf5 ==> Searching for binary cache of hdf5 ==> Installing hdf5 from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-hdf5-1.10.1-e4gz6f2l5ik3ijuk3alwsqplex4tbvin.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4/linux-ubuntu16.04-x86_64-gcc-5.4.0-hdf5-1.10.4-xxd7syhgej6onpyfyewxqcqe7ltkt7ob.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:49:45 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:07:32 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed hdf5 from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1-e4gz6f2l5ik3ijuk3alwsqplex4tbvin + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4-xxd7syhgej6onpyfyewxqcqe7ltkt7ob We'll do a quick check in on what we have installed so far. .. code-block:: console $ spack find -ldf - ==> 23 installed packages. + ==> 32 installed packages -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- - ufruk7k openssl@1.0.2k%clang + 6wc66et tcl@8.6.8%clang i426yu3 ^zlib@1.2.8%clang i426yu3 zlib@1.2.8%clang @@ -686,26 +744,48 @@ We'll do a quick check in on what we have installed so far. -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- - pa6oqzf hdf5@1.10.1%gcc + 3sx2gxe autoconf@2.69%gcc + suf5jtc ^m4@1.4.18%gcc + fypapcp ^libsigsegv@2.11%gcc + ic2kyoa ^perl@5.26.2%gcc + q4fpyuo ^gdbm@1.14.1%gcc + nxhwrg7 ^readline@7.0%gcc + 3o765ou ^ncurses@6.1%gcc + + rymw7im automake@1.16.1%gcc + ic2kyoa ^perl@5.26.2%gcc + q4fpyuo ^gdbm@1.14.1%gcc + nxhwrg7 ^readline@7.0%gcc + 3o765ou ^ncurses@6.1%gcc + + d4iajxs findutils@4.6.0%gcc + + q4fpyuo gdbm@1.14.1%gcc + nxhwrg7 ^readline@7.0%gcc + 3o765ou ^ncurses@6.1%gcc + + 5vcv5r6 hdf5@1.10.4%gcc 5nus6kn ^zlib@1.2.11%gcc - bovz45m hdf5@1.10.1%gcc - yo5qkfv ^openmpi@3.0.0%gcc - ivg4d2e ^hwloc@1.11.8%gcc + ozyvmhz hdf5@1.10.4%gcc + 3njc4q5 ^openmpi@3.1.3%gcc + 43tkw5m ^hwloc@1.11.9%gcc 5urc6tc ^libpciaccess@0.13.5%gcc - sxk64lv ^libxml2@2.9.4%gcc - htnq7wq ^xz@5.2.3%gcc + wpexsph ^libxml2@2.9.8%gcc + teneqii ^xz@5.2.4%gcc 5nus6kn ^zlib@1.2.11%gcc + ft463od ^numactl@2.0.11%gcc - e4gz6f2 hdf5@1.10.1%gcc - cymrnoo ^mpich@3.2%gcc + xxd7syh hdf5@1.10.4%gcc + p3f7p2r ^mpich@3.2.1%gcc 5nus6kn ^zlib@1.2.11%gcc - ivg4d2e hwloc@1.11.8%gcc + 43tkw5m hwloc@1.11.9%gcc 5urc6tc ^libpciaccess@0.13.5%gcc - sxk64lv ^libxml2@2.9.4%gcc - htnq7wq ^xz@5.2.3%gcc + wpexsph ^libxml2@2.9.8%gcc + teneqii ^xz@5.2.4%gcc 5nus6kn ^zlib@1.2.11%gcc + ft463od ^numactl@2.0.11%gcc 5urc6tc libpciaccess@0.13.5%gcc @@ -713,33 +793,52 @@ We'll do a quick check in on what we have installed so far. o2pfwjf libtool@2.4.6%gcc - sxk64lv libxml2@2.9.4%gcc - htnq7wq ^xz@5.2.3%gcc + wpexsph libxml2@2.9.8%gcc + teneqii ^xz@5.2.4%gcc 5nus6kn ^zlib@1.2.11%gcc - r5envx3 m4@1.4.18%gcc + suf5jtc m4@1.4.18%gcc fypapcp ^libsigsegv@2.11%gcc - cymrnoo mpich@3.2%gcc + p3f7p2r mpich@3.2.1%gcc + + 3o765ou ncurses@6.1%gcc - yo5qkfv openmpi@3.0.0%gcc - ivg4d2e ^hwloc@1.11.8%gcc + ft463od numactl@2.0.11%gcc + + 3njc4q5 openmpi@3.1.3%gcc + 43tkw5m ^hwloc@1.11.9%gcc 5urc6tc ^libpciaccess@0.13.5%gcc - sxk64lv ^libxml2@2.9.4%gcc - htnq7wq ^xz@5.2.3%gcc + wpexsph ^libxml2@2.9.8%gcc + teneqii ^xz@5.2.4%gcc 5nus6kn ^zlib@1.2.11%gcc + ft463od ^numactl@2.0.11%gcc + + ic2kyoa perl@5.26.2%gcc + q4fpyuo ^gdbm@1.14.1%gcc + nxhwrg7 ^readline@7.0%gcc + 3o765ou ^ncurses@6.1%gcc + + fovrh7a pkgconf@1.4.2%gcc - gyxmhgb openssl@1.0.2k%gcc + nxhwrg7 readline@7.0%gcc + 3o765ou ^ncurses@6.1%gcc + + am4pbat tcl@8.6.8%gcc 64mns5m ^zlib@1.2.8%gcc cppflags="-O3" - 2woov64 openssl@1.0.2k%gcc + qhwyccy tcl@8.6.8%gcc 5nus6kn ^zlib@1.2.11%gcc - ae2hwm7 pkg-config@0.29.2%gcc + zs7a2pc texinfo@6.5%gcc + ic2kyoa ^perl@5.26.2%gcc + q4fpyuo ^gdbm@1.14.1%gcc + nxhwrg7 ^readline@7.0%gcc + 3o765ou ^ncurses@6.1%gcc milz7fm util-macros@1.19.1%gcc - htnq7wq xz@5.2.3%gcc + teneqii xz@5.2.4%gcc bkyl5bh zlib@1.2.8%gcc @@ -761,6 +860,30 @@ DAG as a graph. o | zlib / o mpich + o findutils + |\ + | |\ + | | |\ + | | | |\ + o | | | | texinfo + | | | o | automake + | |_|/| | + |/| | | | + | | | |/ + | | | o autoconf + | |_|/| + |/| |/ + | |/| + o | | perl + o | | gdbm + o | | readline + o | | ncurses + o | | pkgconf + / / + | o libtool + |/ + o m4 + o libsigsegv You may also have noticed that there are some packages shown in the ``spack find -d`` output that we didn't install explicitly. These are @@ -782,270 +905,237 @@ let's look at an even more complicated package. .. code-block:: console - $ spack install --use-cache trilinos + $ spack install trilinos + ==> Installing diffutils + ==> Searching for binary cache of diffutils + ==> Finding buildcaches in /mirror/build_cache + ==> Installing diffutils from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/diffutils-3.6/linux-ubuntu16.04-x86_64-gcc-5.4.0-diffutils-3.6-2rhuivgjrna2nrxhntyde6md2khcvs34.spack + ######################################################################## 100.0% + gpg: Signature made Sat Nov 10 05:30:17 2018 UTC using RSA key ID 3B7C69B2 + gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] + gpg: WARNING: This key is not certified with a trusted signature! + gpg: There is no indication that the signature belongs to the owner. + Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 + ==> Successfully installed diffutils from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/diffutils-3.6-2rhuivgjrna2nrxhntyde6md2khcvs34 ==> Installing bzip2 ==> Searching for binary cache of bzip2 - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-hdf5-1.10.1-e4gz6f2l5ik3ijuk3alwsqplex4tbvin.spec.yaml - ######################################################################## 100.0% - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-mpich-3.2-cymrnoowcc4vdyvdnf5ypvob4cmdadk5.spec.yaml - ######################################################################## 100.0% ==> Installing bzip2 from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/bzip2-1.0.6/linux-ubuntu16.04-x86_64-gcc-5.4.0-bzip2-1.0.6-ufczdvsqt6edesm36xiucyry7myhj7e7.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/bzip2-1.0.6/linux-ubuntu16.04-x86_64-gcc-5.4.0-bzip2-1.0.6-ufczdvsqt6edesm36xiucyry7myhj7e7.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:39:37 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:34:37 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed bzip2 from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/bzip2-1.0.6-ufczdvsqt6edesm36xiucyry7myhj7e7 - ==> zlib is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/bzip2-1.0.6-ufczdvsqt6edesm36xiucyry7myhj7e7 + ==> zlib is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb ==> Installing boost ==> Searching for binary cache of boost ==> Installing boost from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/boost-1.65.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-boost-1.65.1-xxqnbqql5nup7rujer2ury3hsdgcumzb.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/boost-1.68.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-boost-1.68.0-zbgfxapchxa4awxdwpleubfuznblxzvt.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:43:14 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 04:58:55 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed boost from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/boost-1.65.1-xxqnbqql5nup7rujer2ury3hsdgcumzb - ==> pkg-config is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pkg-config-0.29.2-ae2hwm7q57byfbxtymts55xppqwk7ecj - ==> Installing ncurses - ==> Searching for binary cache of ncurses - ==> Installing ncurses from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/ncurses-6.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-ncurses-6.0-ukq4tccptm2rxd56d2bumqthnpcjzlez.spack + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/boost-1.68.0-zbgfxapchxa4awxdwpleubfuznblxzvt + ==> pkgconf is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pkgconf-1.4.2-fovrh7alpft646n6mhis5mml6k6e5f4v + ==> ncurses is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/ncurses-6.1-3o765ourmesfrji6yeclb4wb5w54aqbh + ==> readline is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/readline-7.0-nxhwrg7xwc6nbsm2v4ezwe63l6nfidbi + ==> gdbm is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gdbm-1.14.1-q4fpyuo7ouhkeq6d3oabtrppctpvxmes + ==> perl is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/perl-5.26.2-ic2kyoadgp3dxfejcbllyplj2wf524fo + ==> Installing openssl + ==> Searching for binary cache of openssl + ==> Installing openssl from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/openssl-1.0.2o/linux-ubuntu16.04-x86_64-gcc-5.4.0-openssl-1.0.2o-b4y3w3bsyvjla6eesv4vt6aplpfrpsha.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:06:38 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:24:10 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed ncurses from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/ncurses-6.0-ukq4tccptm2rxd56d2bumqthnpcjzlez - ==> openssl is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openssl-1.0.2k-2woov64m3n4gjtnfp722qcyemzf2qtom + ==> Successfully installed openssl from binary cache + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openssl-1.0.2o-b4y3w3bsyvjla6eesv4vt6aplpfrpsha ==> Installing cmake ==> Searching for binary cache of cmake ==> Installing cmake from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/cmake-3.9.4/linux-ubuntu16.04-x86_64-gcc-5.4.0-cmake-3.9.4-a2lyofsoxutyy4ihvzopizpbjubtdoem.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/cmake-3.12.3/linux-ubuntu16.04-x86_64-gcc-5.4.0-cmake-3.12.3-otafqzhh4xnlq2mpakch7dr3tjfsrjnx.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 01:22:03 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:33:15 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed cmake from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/cmake-3.9.4-a2lyofsoxutyy4ihvzopizpbjubtdoem + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/cmake-3.12.3-otafqzhh4xnlq2mpakch7dr3tjfsrjnx ==> Installing glm ==> Searching for binary cache of glm ==> Installing glm from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/glm-0.9.7.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-glm-0.9.7.1-jnw622jwcbsymzj2fsx22omjl7tmvaws.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/glm-0.9.7.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-glm-0.9.7.1-jnw622jwcbsymzj2fsx22omjl7tmvaws.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:30:38 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:30:33 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed glm from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/glm-0.9.7.1-jnw622jwcbsymzj2fsx22omjl7tmvaws - ==> libsigsegv is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libsigsegv-2.11-fypapcprssrj3nstp6njprskeyynsgaz - ==> m4 is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/m4-1.4.18-r5envx3kqctwwflhd4qax4ahqtt6x43a - ==> libtool is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libtool-2.4.6-o2pfwjf44353ajgr42xqtvzyvqsazkgu - ==> util-macros is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/util-macros-1.19.1-milz7fmttmptcic2qdk5cnel7ll5sybr - ==> libpciaccess is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libpciaccess-0.13.5-5urc6tcjae26fbbd2wyfohoszhgxtbmc - ==> xz is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/xz-5.2.3-htnq7wqdrqtof6uxqicdj3f7oe3xz6pw - ==> libxml2 is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libxml2-2.9.4-sxk64lvcxhqjflzesnf3ye4wakovwi45 - ==> hwloc is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hwloc-1.11.8-ivg4d2e6anxwin4zbld2g4qlrbuquoyg - ==> openmpi is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/glm-0.9.7.1-jnw622jwcbsymzj2fsx22omjl7tmvaws + ==> libsigsegv is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libsigsegv-2.11-fypapcprssrj3nstp6njprskeyynsgaz + ==> m4 is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/m4-1.4.18-suf5jtcfehivwfesrc5hjy72r4nukyel + ==> libtool is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libtool-2.4.6-o2pfwjf44353ajgr42xqtvzyvqsazkgu + ==> util-macros is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/util-macros-1.19.1-milz7fmttmptcic2qdk5cnel7ll5sybr + ==> libpciaccess is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libpciaccess-0.13.5-5urc6tcjae26fbbd2wyfohoszhgxtbmc + ==> xz is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/xz-5.2.4-teneqii2xv5u6zl5r6qi3pwurc6pmypz + ==> libxml2 is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libxml2-2.9.8-wpexsphdmfayxqxd4up5vgwuqgu5woo7 + ==> autoconf is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/autoconf-2.69-3sx2gxeibc4oasqd4o5h6lnwpcpsgd2q + ==> automake is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/automake-1.16.1-rymw7imfehycqxzj4nuy2oiw3abegooy + ==> numactl is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/numactl-2.0.11-ft463odrombnxlc3qew4omckhlq7tqgc + ==> hwloc is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hwloc-1.11.9-43tkw5mt6huhv37vqnybqgxtkodbsava + ==> openmpi is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.1.3-3njc4q5pqdpptq6jvqjrezkffwokv2sx ==> Installing hdf5 ==> Searching for binary cache of hdf5 ==> Installing hdf5 from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-hdf5-1.10.1-d73xxpvfxgd2z2ypmuuwtxhoxmzdglez.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4/linux-ubuntu16.04-x86_64-gcc-5.4.0-hdf5-1.10.4-oqwnui7wtovuf2id4vjwcxfmxlzjus6y.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:39:36 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:09:10 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed hdf5 from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1-d73xxpvfxgd2z2ypmuuwtxhoxmzdglez + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4-oqwnui7wtovuf2id4vjwcxfmxlzjus6y ==> Installing openblas ==> Searching for binary cache of openblas ==> Installing openblas from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/openblas-0.2.20/linux-ubuntu16.04-x86_64-gcc-5.4.0-openblas-0.2.20-4dahl6ltbpojei4s3stbqbq5iuuqlaxo.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/openblas-0.3.3/linux-ubuntu16.04-x86_64-gcc-5.4.0-openblas-0.3.3-cyeg2yiitpuqglhvbox5gtbgsim2v5vn.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:43:22 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:32:04 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed openblas from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openblas-0.2.20-4dahl6ltbpojei4s3stbqbq5iuuqlaxo + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openblas-0.3.3-cyeg2yiitpuqglhvbox5gtbgsim2v5vn ==> Installing hypre ==> Searching for binary cache of hypre ==> Installing hypre from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hypre-2.12.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-hypre-2.12.1-z3rgfzqc4gu4u4qvveyo2dqqzl2j463z.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hypre-2.15.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-hypre-2.15.1-fshksdpecwiq7r6vawfswpboedhbisju.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:30:17 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:07:34 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed hypre from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hypre-2.12.1-z3rgfzqc4gu4u4qvveyo2dqqzl2j463z + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hypre-2.15.1-fshksdpecwiq7r6vawfswpboedhbisju ==> Installing matio ==> Searching for binary cache of matio ==> Installing matio from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/matio-1.5.9/linux-ubuntu16.04-x86_64-gcc-5.4.0-matio-1.5.9-4ajrcuhdf5uktotnrfzufufy5vbd6any.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/matio-1.5.9/linux-ubuntu16.04-x86_64-gcc-5.4.0-matio-1.5.9-lmzdgssvobdljw52mtahelu2ju7osh6h.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:30:24 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:05:13 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed matio from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/matio-1.5.9-4ajrcuhdf5uktotnrfzufufy5vbd6any + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/matio-1.5.9-lmzdgssvobdljw52mtahelu2ju7osh6h ==> Installing metis ==> Searching for binary cache of metis ==> Installing metis from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/metis-5.1.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-metis-5.1.0-m34qytcqsvsaduxyh3wevf3kj6pbzyw6.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/metis-5.1.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-metis-5.1.0-3wnvp4ji3wwu4v4vymszrhx6naehs6jc.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:39:28 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:31:42 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed metis from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/metis-5.1.0-m34qytcqsvsaduxyh3wevf3kj6pbzyw6 + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/metis-5.1.0-3wnvp4ji3wwu4v4vymszrhx6naehs6jc ==> Installing netlib-scalapack ==> Searching for binary cache of netlib-scalapack ==> Installing netlib-scalapack from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/netlib-scalapack-2.0.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-netlib-scalapack-2.0.2-xudg7xypr63nte6ifrdsmllilxbrfiar.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/netlib-scalapack-2.0.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-netlib-scalapack-2.0.2-wotpfwfctgfkzzn2uescucxvvbg3tm6b.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:30:28 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:07:22 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed netlib-scalapack from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/netlib-scalapack-2.0.2-xudg7xypr63nte6ifrdsmllilxbrfiar + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/netlib-scalapack-2.0.2-wotpfwfctgfkzzn2uescucxvvbg3tm6b ==> Installing mumps ==> Searching for binary cache of mumps ==> Installing mumps from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/mumps-5.1.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-mumps-5.1.1-5a7hgodxoze47xqd32jcxhvzctex4ezx.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/mumps-5.1.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-mumps-5.1.1-acsg2dzroox2swssgc5cwgkvdy6jcm5q.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:30:15 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:18:32 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed mumps from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mumps-5.1.1-5a7hgodxoze47xqd32jcxhvzctex4ezx + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mumps-5.1.1-acsg2dzroox2swssgc5cwgkvdy6jcm5q ==> Installing netcdf ==> Searching for binary cache of netcdf ==> Installing netcdf from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/netcdf-4.4.1.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-netcdf-4.4.1.1-gk2xxhbqijnrdwicawawcll4t3c7dvoj.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/netcdf-4.6.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-netcdf-4.6.1-mhm4izpogf4mrjidyskb6ewtzxdi7t6g.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:43:37 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:11:57 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed netcdf from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/netcdf-4.4.1.1-gk2xxhbqijnrdwicawawcll4t3c7dvoj + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/netcdf-4.6.1-mhm4izpogf4mrjidyskb6ewtzxdi7t6g ==> Installing parmetis ==> Searching for binary cache of parmetis ==> Installing parmetis from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/parmetis-4.0.3/linux-ubuntu16.04-x86_64-gcc-5.4.0-parmetis-4.0.3-o4qdo7aylhejov2e5ii7tagrnw6qrrlo.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/parmetis-4.0.3/linux-ubuntu16.04-x86_64-gcc-5.4.0-parmetis-4.0.3-uv6h3sqx6quqg22hxesi2mw2un3kw6b7.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:39:37 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:12:04 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed parmetis from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/parmetis-4.0.3-o4qdo7aylhejov2e5ii7tagrnw6qrrlo + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/parmetis-4.0.3-uv6h3sqx6quqg22hxesi2mw2un3kw6b7 ==> Installing suite-sparse ==> Searching for binary cache of suite-sparse ==> Installing suite-sparse from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/suite-sparse-4.5.5/linux-ubuntu16.04-x86_64-gcc-5.4.0-suite-sparse-4.5.5-bg67crx4ltmxulnumuxjxqzrcobpmyzg.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/suite-sparse-5.3.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-suite-sparse-5.3.0-zaau4kifha2enpdcn3mjlrqym7hm7yon.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:30:31 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:22:54 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed suite-sparse from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/suite-sparse-4.5.5-bg67crx4ltmxulnumuxjxqzrcobpmyzg - ==> Installing superlu-dist - ==> Searching for binary cache of superlu-dist - ==> Installing superlu-dist from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/superlu-dist-5.2.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-superlu-dist-5.2.2-gggsamgizi2dwmwxglgzbxvg6hkamhol.spack - ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:43:35 AM UTC using RSA key ID 3B7C69B2 - gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] - gpg: WARNING: This key is not certified with a trusted signature! - gpg: There is no indication that the signature belongs to the owner. - Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed superlu-dist from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/superlu-dist-5.2.2-gggsamgizi2dwmwxglgzbxvg6hkamhol + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/suite-sparse-5.3.0-zaau4kifha2enpdcn3mjlrqym7hm7yon ==> Installing trilinos ==> Searching for binary cache of trilinos ==> Installing trilinos from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/trilinos-12.12.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-trilinos-12.12.1-istwe3b43b7etgtrhcuzjem3p5gonc6h.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/trilinos-12.12.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-trilinos-12.12.1-rlsruavxqvwk2tgxzxboclbo6ykjf54r.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 11:47:19 PM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:18:10 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed trilinos from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/trilinos-12.12.1-istwe3b43b7etgtrhcuzjem3p5gonc6h -Now we're starting to see the power of Spack. Trilinos has 11 top -level dependecies, many of which have dependencies of their -own. Installing more complex packages can take days or weeks even for -an experienced user. Although we've done a binary installation for the -tutorial, a source installation of trilinos using Spack takes about 3 -hours (depending on the system), but only 20 seconds of programmer -time. +Now we're starting to see the power of Spack. Trilinos in its default +configuration has 23 top level dependecies, many of which have +dependencies of their own. Installing more complex packages can take +days or weeks even for an experienced user. Although we've done a +binary installation for the tutorial, a source installation of +trilinos using Spack takes about 3 hours (depending on the system), +but only 20 seconds of programmer time. Spack manages constistency of the entire DAG. Every MPI dependency will be satisfied by the same configuration of MPI, etc. If we install @@ -1054,142 +1144,116 @@ with ``mpich``: .. code-block:: console - $ spack install --use-cache trilinos +hdf5 ^hdf5+hl+mpi ^mpich - ==> bzip2 is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/bzip2-1.0.6-ufczdvsqt6edesm36xiucyry7myhj7e7 - ==> zlib is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb - ==> boost is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/boost-1.65.1-xxqnbqql5nup7rujer2ury3hsdgcumzb - ==> pkg-config is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pkg-config-0.29.2-ae2hwm7q57byfbxtymts55xppqwk7ecj - ==> ncurses is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/ncurses-6.0-ukq4tccptm2rxd56d2bumqthnpcjzlez - ==> openssl is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openssl-1.0.2k-2woov64m3n4gjtnfp722qcyemzf2qtom - ==> cmake is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/cmake-3.9.4-a2lyofsoxutyy4ihvzopizpbjubtdoem - ==> glm is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/glm-0.9.7.1-jnw622jwcbsymzj2fsx22omjl7tmvaws - ==> mpich is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpich-3.2-cymrnoowcc4vdyvdnf5ypvob4cmdadk5 - ==> hdf5 is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1-e4gz6f2l5ik3ijuk3alwsqplex4tbvin - ==> openblas is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openblas-0.2.20-4dahl6ltbpojei4s3stbqbq5iuuqlaxo + $ spack install trilinos +hdf5 ^hdf5+hl+mpi ^mpich + ==> diffutils is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/diffutils-3.6-2rhuivgjrna2nrxhntyde6md2khcvs34 + ==> bzip2 is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/bzip2-1.0.6-ufczdvsqt6edesm36xiucyry7myhj7e7 + ==> zlib is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb + ==> boost is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/boost-1.68.0-zbgfxapchxa4awxdwpleubfuznblxzvt + ==> pkgconf is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pkgconf-1.4.2-fovrh7alpft646n6mhis5mml6k6e5f4v + ==> ncurses is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/ncurses-6.1-3o765ourmesfrji6yeclb4wb5w54aqbh + ==> readline is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/readline-7.0-nxhwrg7xwc6nbsm2v4ezwe63l6nfidbi + ==> gdbm is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gdbm-1.14.1-q4fpyuo7ouhkeq6d3oabtrppctpvxmes + ==> perl is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/perl-5.26.2-ic2kyoadgp3dxfejcbllyplj2wf524fo + ==> openssl is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openssl-1.0.2o-b4y3w3bsyvjla6eesv4vt6aplpfrpsha + ==> cmake is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/cmake-3.12.3-otafqzhh4xnlq2mpakch7dr3tjfsrjnx + ==> glm is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/glm-0.9.7.1-jnw622jwcbsymzj2fsx22omjl7tmvaws + ==> libsigsegv is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libsigsegv-2.11-fypapcprssrj3nstp6njprskeyynsgaz + ==> m4 is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/m4-1.4.18-suf5jtcfehivwfesrc5hjy72r4nukyel + ==> autoconf is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/autoconf-2.69-3sx2gxeibc4oasqd4o5h6lnwpcpsgd2q + ==> automake is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/automake-1.16.1-rymw7imfehycqxzj4nuy2oiw3abegooy + ==> libtool is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libtool-2.4.6-o2pfwjf44353ajgr42xqtvzyvqsazkgu + ==> texinfo is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/texinfo-6.5-zs7a2pcwhq6ho2cj2x26uxfktwkpyucn + ==> findutils is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/findutils-4.6.0-d4iajxsopzrlcjtasahxqeyjkjv5jx4v + ==> mpich is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpich-3.2.1-p3f7p2r5ntrynqibosglxvhwyztiwqs5 + ==> hdf5 is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4-xxd7syhgej6onpyfyewxqcqe7ltkt7ob + ==> openblas is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openblas-0.3.3-cyeg2yiitpuqglhvbox5gtbgsim2v5vn ==> Installing hypre ==> Searching for binary cache of hypre - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-netcdf-4.4.1.1-gk2xxhbqijnrdwicawawcll4t3c7dvoj.spec.yaml - ######################################################################## 100.0% - ... - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-bzip2-1.0.6-ufczdvsqt6edesm36xiucyry7myhj7e7.spec.yaml - ######################################################################## 100.0% - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-boost-1.65.1-xxqnbqql5nup7rujer2ury3hsdgcumzb.spec.yaml - ######################################################################## 100.0% + ==> Finding buildcaches in /mirror/build_cache ==> Installing hypre from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hypre-2.12.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-hypre-2.12.1-3psjg2ka2qa26jtgitlil4vglqr67anj.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/hypre-2.15.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-hypre-2.15.1-obewuozolon7tkdg4cfxc6ae2tzkronb.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:49:37 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:34:36 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed hypre from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hypre-2.12.1-3psjg2ka2qa26jtgitlil4vglqr67anj + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hypre-2.15.1-obewuozolon7tkdg4cfxc6ae2tzkronb ==> Installing matio ==> Searching for binary cache of matio ==> Installing matio from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/matio-1.5.9/linux-ubuntu16.04-x86_64-gcc-5.4.0-matio-1.5.9-3ibrutc6cs7x6ybyt5ni5n6djtq5okm2.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/matio-1.5.9/linux-ubuntu16.04-x86_64-gcc-5.4.0-matio-1.5.9-gvyqldhifflmvcrtui3b6s64jcczsxxh.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:45:26 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:25:11 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed matio from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/matio-1.5.9-3ibrutc6cs7x6ybyt5ni5n6djtq5okm2 - ==> metis is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/metis-5.1.0-m34qytcqsvsaduxyh3wevf3kj6pbzyw6 + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/matio-1.5.9-gvyqldhifflmvcrtui3b6s64jcczsxxh + ==> metis is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/metis-5.1.0-3wnvp4ji3wwu4v4vymszrhx6naehs6jc ==> Installing netlib-scalapack ==> Searching for binary cache of netlib-scalapack ==> Installing netlib-scalapack from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/netlib-scalapack-2.0.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-netlib-scalapack-2.0.2-km7tsbgoyyywonyejkjoojskhc5knz3z.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/netlib-scalapack-2.0.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-netlib-scalapack-2.0.2-p7iln2pcosw2ipyqoyr7ie6lpva2oj7r.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:49:49 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:32:20 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed netlib-scalapack from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/netlib-scalapack-2.0.2-km7tsbgoyyywonyejkjoojskhc5knz3z + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/netlib-scalapack-2.0.2-p7iln2pcosw2ipyqoyr7ie6lpva2oj7r ==> Installing mumps ==> Searching for binary cache of mumps ==> Installing mumps from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/mumps-5.1.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-mumps-5.1.1-phvk6yhkzqed6gjsbah6dnhlesdclild.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/mumps-5.1.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-mumps-5.1.1-cumcj5a75cagsznpjrgretxdg6okxaur.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:45:28 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:33:18 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed mumps from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mumps-5.1.1-phvk6yhkzqed6gjsbah6dnhlesdclild - ==> libsigsegv is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libsigsegv-2.11-fypapcprssrj3nstp6njprskeyynsgaz - ==> m4 is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/m4-1.4.18-r5envx3kqctwwflhd4qax4ahqtt6x43a + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mumps-5.1.1-cumcj5a75cagsznpjrgretxdg6okxaur ==> Installing netcdf ==> Searching for binary cache of netcdf ==> Installing netcdf from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/netcdf-4.4.1.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-netcdf-4.4.1.1-rmx4uppnhpv6kq7bh7r46zfqevgdkkgw.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/netcdf-4.6.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-netcdf-4.6.1-wmmx5sgwfds34v7bkkhiduar5yecrnnd.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:49:38 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:24:01 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed netcdf from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/netcdf-4.4.1.1-rmx4uppnhpv6kq7bh7r46zfqevgdkkgw + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/netcdf-4.6.1-wmmx5sgwfds34v7bkkhiduar5yecrnnd ==> Installing parmetis ==> Searching for binary cache of parmetis ==> Installing parmetis from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/parmetis-4.0.3/linux-ubuntu16.04-x86_64-gcc-5.4.0-parmetis-4.0.3-qk77g6aiqr3f2hsykg54zzuhlxcpdcmv.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/parmetis-4.0.3/linux-ubuntu16.04-x86_64-gcc-5.4.0-parmetis-4.0.3-jehtatan4y2lcobj6waoqv66jj4libtz.spack ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:45:14 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:07:41 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed parmetis from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/parmetis-4.0.3-qk77g6aiqr3f2hsykg54zzuhlxcpdcmv - ==> suite-sparse is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/suite-sparse-4.5.5-bg67crx4ltmxulnumuxjxqzrcobpmyzg - ==> Installing superlu-dist - ==> Searching for binary cache of superlu-dist - ==> Installing superlu-dist from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/superlu-dist-5.2.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-superlu-dist-5.2.2-65vot2le3ezooz7tj6eveovly725o44x.spack - ######################################################################## 100.0% - gpg: Signature made Sat 11 Nov 2017 12:45:14 AM UTC using RSA key ID 3B7C69B2 - gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] - gpg: WARNING: This key is not certified with a trusted signature! - gpg: There is no indication that the signature belongs to the owner. - Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed superlu-dist from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/superlu-dist-5.2.2-65vot2le3ezooz7tj6eveovly725o44x + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/parmetis-4.0.3-jehtatan4y2lcobj6waoqv66jj4libtz + ==> suite-sparse is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/suite-sparse-5.3.0-zaau4kifha2enpdcn3mjlrqym7hm7yon ==> Installing trilinos ==> Searching for binary cache of trilinos ==> Installing trilinos from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/trilinos-12.12.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-trilinos-12.12.1-xupifcp5d4f53cobm6g3xzao577uzezs.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/trilinos-12.12.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-trilinos-12.12.1-kqc52moweigxqxzwzfqajc6ocxwdwn4w.spack ######################################################################## 100.0% - gpg: Signature made Sun 12 Nov 2017 12:04:58 AM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:30:15 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed trilinos from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/trilinos-12.12.1-xupifcp5d4f53cobm6g3xzao577uzezs + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/trilinos-12.12.1-kqc52moweigxqxzwzfqajc6ocxwdwn4w We see that every package in the trilinos DAG that depends on MPI now @@ -1198,47 +1262,47 @@ uses ``mpich``. .. code-block:: console $ spack find -d trilinos - ==> 2 installed packages. + ==> 2 installed packages -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- trilinos@12.12.1 - ^boost@1.65.1 + ^boost@1.68.0 ^bzip2@1.0.6 ^zlib@1.2.11 ^glm@0.9.7.1 - ^hdf5@1.10.1 - ^openmpi@3.0.0 - ^hwloc@1.11.8 + ^hdf5@1.10.4 + ^openmpi@3.1.3 + ^hwloc@1.11.9 ^libpciaccess@0.13.5 - ^libxml2@2.9.4 - ^xz@5.2.3 - ^hypre@2.12.1 - ^openblas@0.2.20 + ^libxml2@2.9.8 + ^xz@5.2.4 + ^numactl@2.0.11 + ^hypre@2.15.1 + ^openblas@0.3.3 ^matio@1.5.9 ^metis@5.1.0 ^mumps@5.1.1 ^netlib-scalapack@2.0.2 - ^netcdf@4.4.1.1 + ^netcdf@4.6.1 ^parmetis@4.0.3 - ^suite-sparse@4.5.5 - ^superlu-dist@5.2.2 + ^suite-sparse@5.3.0 trilinos@12.12.1 - ^boost@1.65.1 + ^boost@1.68.0 ^bzip2@1.0.6 ^zlib@1.2.11 ^glm@0.9.7.1 - ^hdf5@1.10.1 - ^mpich@3.2 - ^hypre@2.12.1 - ^openblas@0.2.20 + ^hdf5@1.10.4 + ^mpich@3.2.1 + ^hypre@2.15.1 + ^openblas@0.3.3 ^matio@1.5.9 ^metis@5.1.0 ^mumps@5.1.1 ^netlib-scalapack@2.0.2 - ^netcdf@4.4.1.1 + ^netcdf@4.6.1 ^parmetis@4.0.3 - ^suite-sparse@4.5.5 - ^superlu-dist@5.2.2 + ^suite-sparse@5.3.0 + As we discussed before, the ``spack find -d`` command shows the dependency information as a tree. While that is often sufficient, many @@ -1263,95 +1327,111 @@ command shows the full DAG of the dependency information. | | | | | | | | | | |\ | | | | | | | | | | | |\ | | | | | | | | | | | | |\ - | | | | | | | | | | | | | |\ - o | | | | | | | | | | | | | | superlu-dist - |\ \ \ \ \ \ \ \ \ \ \ \ \ \ \ - | |_|/ / / / / / / / / / / / / - |/| | | | | | | | | | | | | | - | |\ \ \ \ \ \ \ \ \ \ \ \ \ \ - | | |_|/ / / / / / / / / / / / - | |/| | | | | | | | | | | | | - | | |\ \ \ \ \ \ \ \ \ \ \ \ \ - | | | |_|/ / / / / / / / / / / - | | |/| | | | | | | | | | | | - | | | | |_|_|/ / / / / / / / - | | | |/| | | | | | | | | | - | | | | o | | | | | | | | | suite-sparse - | | | |/| | | | | | | | | | - | | |/|/ / / / / / / / / / - o | | | | | | | | | | | | parmetis - |\| | | | | | | | | | | | - |\ \ \ \ \ \ \ \ \ \ \ \ \ - | |_|_|/ / / / / / / / / / - |/| | | | | | | | | | | | - | | |_|_|_|_|_|_|_|/ / / - | |/| | | | | | | | | | + o | | | | | | | | | | | | | suite-sparse + |\ \ \ \ \ \ \ \ \ \ \ \ \ \ + | |_|_|/ / / / / / / / / / / + |/| | | | | | | | | | | | | + | |\ \ \ \ \ \ \ \ \ \ \ \ \ + | | |_|_|_|_|_|/ / / / / / / + | |/| | | | | | | | | | | | + | | | |_|_|_|_|_|_|_|/ / / + | | |/| | | | | | | | | | + | | | o | | | | | | | | | parmetis + | | |/| | | | | | | | | | + | |/|/| | | | | | | | | | + | | | |/ / / / / / / / / | | | | | | o | | | | | mumps - | | | |_|_|/| | | | | | - | | |/| |_|/| | | | | | + | |_|_|_|_|/| | | | | | + |/| | | |_|/| | | | | | | | | |/| |/ / / / / / | | | | |/| | | | | | | | | | o | | | | | | netlib-scalapack - | | |_|/| | | | | | | - | |/| |/| | | | | | | + | |_|_|/| | | | | | | + |/| | |/| | | | | | | | | |/|/ / / / / / / - o | | | | | | | | | metis - |/ / / / / / / / / + | o | | | | | | | | metis + | |/ / / / / / / / | | | | | | | o | glm - | |_|_|_|_|_|/ / - |/| | | | | | | - o | | | | | | | cmake - |\ \ \ \ \ \ \ \ - o | | | | | | | | openssl - | | | | o | | | | netcdf - | |_|_|/| | | | | - |/| | |/| | | | | - | | |/| | | | | | - | | | | |\ \ \ \ \ - | | | | | | |_|/ / - | | | | | |/| | | - | | | | | | o | | matio - | |_|_|_|_|/| | | - |/| | | | |/ / / - | | | | | | o | hypre - | | | |_|_|/| | - | | |/| |_|/ / + | | |_|_|_|_|/ / + | |/| | | | | | + | o | | | | | | cmake + | |\ \ \ \ \ \ \ + | o | | | | | | | openssl + | |\ \ \ \ \ \ \ \ + | | | | | o | | | | netcdf + | | |_|_|/| | | | | + | |/| | |/| | | | | + | | | | | |\ \ \ \ \ + | | | | | | | |_|/ / + | | | | | | |/| | | + | | | | | | | o | | matio + | | |_|_|_|_|/| | | + | |/| | | | |/ / / + | | | | | | | o | hypre + | |_|_|_|_|_|/| | + |/| | | | |_|/ / + | | | | |/| | | + | | | | | | o | hdf5 + | | |_|_|_|/| | + | |/| | | |/ / + | | | | |/| | + | | | | o | | openmpi + | | |_|/| | | + | |/| | | | | + | | | | |\ \ \ + | | | | | o | | hwloc + | | | | |/| | | + | | | | | |\ \ \ + | | | | | | |\ \ \ + | | | | | | o | | | libxml2 + | | |_|_|_|/| | | | + | |/| | | |/| | | | + | | | | | | | | | o boost + | | |_|_|_|_|_|_|/| + | |/| | | | | | | | + | o | | | | | | | | zlib + | / / / / / / / / + | | | | | o | | | xz + | | | | | / / / + | | | | | o | | libpciaccess + | | | | |/| | | + | | | | | |\ \ \ + | | | | | o | | | util-macros + | | | | | / / / + | | | o | | | | numactl + | | | |\ \ \ \ \ + | | | | |_|_|/ / + | | | |/| | | | + | | | | |\ \ \ \ + | | | | | |_|/ / + | | | | |/| | | + | | | | | |\ \ \ + | | | | | o | | | automake + | | |_|_|/| | | | + | |/| | | | | | | + | | | | | |/ / / + | | | | | o | | autoconf + | | |_|_|/| | | + | |/| | |/ / / | | | |/| | | - | | | | | o | hdf5 - | |_|_|_|/| | - |/| | |_|/ / - | | |/| | | - | | o | | | openmpi - | | o | | | hwloc - | | |\ \ \ \ - | | | |\ \ \ \ - | | | o | | | | libxml2 - | |_|/| | | | | - |/| |/| | | | | - | | | | | | | o boost - | |_|_|_|_|_|/| - |/| | | | | | | - o | | | | | | | zlib - / / / / / / / - | | o | | | | xz - | | / / / / - | | o | | | libpciaccess - | |/| | | | - | | |\ \ \ \ - | | o | | | | util-macros - | | / / / / - o | | | | | ncurses - |/ / / / / - o | | | | pkg-config - / / / / - | o | | openblas - | / / - o | | libtool - |/ / - o | m4 - o | libsigsegv - / - o bzip2 + | o | | | | | perl + | o | | | | | gdbm + | o | | | | | readline + | |/ / / / / + | o | | | | ncurses + | | |_|/ / + | |/| | | + | o | | | pkgconf + | / / / + o | | | openblas + / / / + | o | libtool + |/ / + o | m4 + o | libsigsegv + / + o bzip2 + o diffutils You can control how the output is displayed with a number of options. @@ -1369,25 +1449,27 @@ complicated packages. The output can be changed to the ``graphviz`` Uninstalling Packages --------------------- -Earlier we installed many configurations each of zlib and -openssl. Now we will go through and uninstall some of those packages -that we didn't really need. +Earlier we installed many configurations each of zlib and tcl. Now we +will go through and uninstall some of those packages that we didn't +really need. .. code-block:: console - $ spack find -d openssl - ==> 3 installed packages. + $ spack find -d tcl + ==> 3 installed packages -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- - openssl@1.0.2k + tcl@8.6.8 ^zlib@1.2.8 + -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- - openssl@1.0.2k + tcl@8.6.8 ^zlib@1.2.8 - openssl@1.0.2k + tcl@8.6.8 ^zlib@1.2.11 + $ spack find zlib ==> 6 installed packages. -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- @@ -1416,15 +1498,12 @@ We can uninstall packages by spec using the same syntax as install. ==> 5 installed packages. -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- i426yu3 zlib@1.2.8%clang - 4pt75q7 zlib@1.2.11%clang -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- bkyl5bh zlib@1.2.8%gcc - 64mns5m zlib@1.2.8%gcc cppflags="-O3" - 5nus6kn zlib@1.2.11%gcc We can also uninstall packages by referring only to their hash. @@ -1438,22 +1517,19 @@ remove packages that are required by another installed package. ==> Error: Will not uninstall zlib@1.2.8%clang@3.8.0-2ubuntu4/i426yu3 The following packages depend on it: - -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- - ufruk7k openssl@1.0.2k%clang - + -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- + 6wc66et tcl@8.6.8%clang ==> Error: Use \`spack uninstall --dependents\` to uninstall these dependencies as well. $ spack uninstall -R zlib/i426 ==> The following packages will be uninstalled: - -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- - ufruk7k openssl@1.0.2k%clang - - i426yu3 zlib@1.2.8%clang+optimize+pic+shared - + -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- + 6wc66et tcl@8.6.8%clang + i426yu3 zlib@1.2.8%clang+optimize+pic+shared ==> Do you want to proceed? [y/N] y - ==> Successfully uninstalled openssl@1.0.2k%clang@3.8.0-2ubuntu4 arch=linux-ubuntu16.04-x86_64 /ufruk7k + ==> Successfully uninstalled tcl@8.6.8%clang@3.8.0-2ubuntu4 arch=linux-ubuntu16.04-x86_64 /6wc66et ==> Successfully uninstalled zlib@1.2.8%clang@3.8.0-2ubuntu4+optimize+pic+shared arch=linux-ubuntu16.04-x86_64 /i426yu3 Spack will not uninstall packages that are not sufficiently @@ -1465,25 +1541,22 @@ packages at once. $ spack uninstall trilinos ==> Error: trilinos matches multiple packages: - -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- - istwe3b trilinos@12.12.1%gcc~alloptpkgs+amesos+amesos2+anasazi+aztec+belos+boost build_type=RelWithDebInfo ~dtk+epetra+epetraext+exodus+fortran~fortrilinos+gtest+hdf5+hypre+ifpack+ifpack2+instantiate~instantiate_cmplx~intrepid~intrepid2+metis+ml+muelu+mumps~nox~openmp~pnetcdf~python~rol+sacado~shards+shared~stk+suite-sparse~superlu+superlu-dist+teuchos+tpetra~x11~xsdkflags~zlib+zoltan+zoltan2 - - xupifcp trilinos@12.12.1%gcc~alloptpkgs+amesos+amesos2+anasazi+aztec+belos+boost build_type=RelWithDebInfo ~dtk+epetra+epetraext+exodus+fortran~fortrilinos+gtest+hdf5+hypre+ifpack+ifpack2+instantiate~instantiate_cmplx~intrepid~intrepid2+metis+ml+muelu+mumps~nox~openmp~pnetcdf~python~rol+sacado~shards+shared~stk+suite-sparse~superlu+superlu-dist+teuchos+tpetra~x11~xsdkflags~zlib+zoltan+zoltan2 - + -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- + rlsruav trilinos@12.12.1%gcc~alloptpkgs+amesos+amesos2+anasazi+aztec+belos+boost build_type=RelWithDebInfo ~cgns~complex~dtk+epetra+epetraext+exodus+explicit_template_instantiation~float+fortran~fortrilinos+gtest+hdf5+hypre+ifpack+ifpack2~intrepid~intrepid2~isorropia+kokkos+metis~minitensor+ml+muelu+mumps~nox~openmp~phalanx~piro~pnetcdf~python~rol~rythmos+sacado~shards+shared~stk+suite-sparse~superlu~superlu-dist~teko~tempus+teuchos+tpetra~x11~xsdkflags~zlib+zoltan+zoltan2 + kqc52mo trilinos@12.12.1%gcc~alloptpkgs+amesos+amesos2+anasazi+aztec+belos+boost build_type=RelWithDebInfo ~cgns~complex~dtk+epetra+epetraext+exodus+explicit_template_instantiation~float+fortran~fortrilinos+gtest+hdf5+hypre+ifpack+ifpack2~intrepid~intrepid2~isorropia+kokkos+metis~minitensor+ml+muelu+mumps~nox~openmp~phalanx~piro~pnetcdf~python~rol~rythmos+sacado~shards+shared~stk+suite-sparse~superlu~superlu-dist~teko~tempus+teuchos+tpetra~x11~xsdkflags~zlib+zoltan+zoltan2 ==> Error: You can either: a) use a more specific spec, or b) use `spack uninstall --all` to uninstall ALL matching specs. - $ spack uninstall /istw + $ spack uninstall /rlsr ==> The following packages will be uninstalled: - -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- - istwe3b trilinos@12.12.1%gcc~alloptpkgs+amesos+amesos2+anasazi+aztec+belos+boost build_type=RelWithDebInfo ~dtk+epetra+epetraext+exodus+fortran~fortrilinos+gtest+hdf5+hypre+ifpack+ifpack2+instantiate~instantiate_cmplx~intrepid~intrepid2+metis+ml+muelu+mumps~nox~openmp~pnetcdf~python~rol+sacado~shards+shared~stk+suite-sparse~superlu+superlu-dist+teuchos+tpetra~x11~xsdkflags~zlib+zoltan+zoltan2 - + -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- + rlsruav trilinos@12.12.1%gcc~alloptpkgs+amesos+amesos2+anasazi+aztec+belos+boost build_type=RelWithDebInfo ~cgns~complex~dtk+epetra+epetraext+exodus+explicit_template_instantiation~float+fortran~fortrilinos+gtest+hdf5+hypre+ifpack+ifpack2~intrepid~intrepid2~isorropia+kokkos+metis~minitensor+ml+muelu+mumps~nox~openmp~phalanx~piro~pnetcdf~python~rol~rythmos+sacado~shards+shared~stk+suite-sparse~superlu~superlu-dist~teko~tempus+teuchos+tpetra~x11~xsdkflags~zlib+zoltan+zoltan2 ==> Do you want to proceed? [y/N] y - ==> Successfully uninstalled trilinos@12.12.1%gcc@5.4.0~alloptpkgs+amesos+amesos2+anasazi+aztec+belos+boost build_type=RelWithDebInfo ~dtk+epetra+epetraext+exodus+fortran~fortrilinos+gtest+hdf5+hypre+ifpack+ifpack2+instantiate~instantiate_cmplx~intrepid~intrepid2+metis+ml+muelu+mumps~nox~openmp~pnetcdf~python~rol+sacado~shards+shared~stk+suite-sparse~superlu+superlu-dist+teuchos+tpetra~x11~xsdkflags~zlib+zoltan+zoltan2 arch=linux-ubuntu16.04-x86_64 /istwe3b + ==> Successfully uninstalled trilinos@12.12.1%gcc@5.4.0~alloptpkgs+amesos+amesos2+anasazi+aztec+belos+boost build_type=RelWithDebInfo ~cgns~complex~dtk+epetra+epetraext+exodus+explicit_template_instantiation~float+fortran~fortrilinos+gtest+hdf5+hypre+ifpack+ifpack2~intrepid~intrepid2~isorropia+kokkos+metis~minitensor+ml+muelu+mumps~nox~openmp~phalanx~piro~pnetcdf~python~rol~rythmos+sacado~shards+shared~stk+suite-sparse~superlu~superlu-dist~teko~tempus+teuchos+tpetra~x11~xsdkflags~zlib+zoltan+zoltan2 arch=linux-ubuntu16.04-x86_64 /rlsruav ----------------------------- Advanced ``spack find`` Usage @@ -1502,10 +1575,10 @@ return every package which was built with ``cppflags="-O3"``. .. code-block:: console $ spack find ^mpich - ==> 9 installed packages. + ==> 8 installed packages -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- - hdf5@1.10.1 hypre@2.12.1 matio@1.5.9 mumps@5.1.1 netcdf@4.4.1.1 netlib-scalapack@2.0.2 parmetis@4.0.3 superlu-dist@5.2.2 trilinos@12.12.1 - + hdf5@1.10.4 matio@1.5.9 netcdf@4.6.1 parmetis@4.0.3 + hypre@2.15.1 mumps@5.1.1 netlib-scalapack@2.0.2 trilinos@12.12.1 $ spack find cppflags=-O3 ==> 1 installed packages. @@ -1513,28 +1586,28 @@ return every package which was built with ``cppflags="-O3"``. zlib@1.2.8 The ``find`` command can also show which packages were installed -explicitly (rather than pulled in as a dependency) using the ``-e`` -flag. The ``-E`` flag shows implicit installs only. The ``find`` command can +explicitly (rather than pulled in as a dependency) using the ``-x`` +flag. The ``-X`` flag shows implicit installs only. The ``find`` command can also show the path to which a spack package was installed using the ``-p`` command. .. code-block:: console - $ spack find -pe - ==> 10 installed packages. + $ spack find -px + ==> 10 installed packages -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- - zlib@1.2.11 /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/zlib-1.2.11-4pt75q7qq6lygf3hgnona4lyc2uwedul + zlib@1.2.11 /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/clang-3.8.0-2ubuntu4/zlib-1.2.11-4pt75q7qq6lygf3hgnona4lyc2uwedul -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- - hdf5@1.10.1 /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1-pa6oqzfeqzkqkzqr2375fqyt3qggx3tr - hdf5@1.10.1 /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1-bovz45ms24pmfr7hlckf56bxegfc4rea - hdf5@1.10.1 /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.1-e4gz6f2l5ik3ijuk3alwsqplex4tbvin - openssl@1.0.2k /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openssl-1.0.2k-gyxmhgbam26d7y42omb7xrvkjjgmzwio - openssl@1.0.2k /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openssl-1.0.2k-2woov64m3n4gjtnfp722qcyemzf2qtom - trilinos@12.12.1 /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/trilinos-12.12.1-xupifcp5d4f53cobm6g3xzao577uzezs - zlib@1.2.8 /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8-bkyl5bhuep6fmhuxzkmhqy25qefjcvzc - zlib@1.2.8 /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8-64mns5mvdacqvlashkf7v6lqrxixhmxu - zlib@1.2.11 /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb + hdf5@1.10.4 /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4-5vcv5r67vpjzenq4apyebshclelnzuja + hdf5@1.10.4 /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4-ozyvmhzdew66byarohm4p36ep7wtcuiw + hdf5@1.10.4 /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4-xxd7syhgej6onpyfyewxqcqe7ltkt7ob + tcl@8.6.8 /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/tcl-8.6.8-am4pbatrtga3etyusg2akmsvrswwxno2 + tcl@8.6.8 /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/tcl-8.6.8-qhwyccywhx2i6s7ob2gvjrjtj3rnfuqt + trilinos@12.12.1 /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/trilinos-12.12.1-kqc52moweigxqxzwzfqajc6ocxwdwn4w + zlib@1.2.8 /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8-bkyl5bhuep6fmhuxzkmhqy25qefjcvzc + zlib@1.2.8 /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8-64mns5mvdacqvlashkf7v6lqrxixhmxu + zlib@1.2.11 /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb --------------------- Customizing Compilers @@ -1562,175 +1635,86 @@ added to the configuration. .. code-block:: console - $ spack install --use-cache gcc - ==> libsigsegv is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libsigsegv-2.11-fypapcprssrj3nstp6njprskeyynsgaz - ==> m4 is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/m4-1.4.18-r5envx3kqctwwflhd4qax4ahqtt6x43a - ==> pkg-config is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pkg-config-0.29.2-ae2hwm7q57byfbxtymts55xppqwk7ecj - ==> ncurses is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/ncurses-6.0-ukq4tccptm2rxd56d2bumqthnpcjzlez - ==> Installing readline - ==> Searching for binary cache of readline - ==> Finding buildcaches in /home/ubuntu/becker/buildcache/build_cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-matio-1.5.9-3ibrutc6cs7x6ybyt5ni5n6djtq5okm2.spec.yaml - ######################################################################## 100.0% - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-trilinos-12.12.1-xupifcp5d4f53cobm6g3xzao577uzezs.spec.yaml - ######################################################################## 100.0% - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-parmetis-4.0.3-qk77g6aiqr3f2hsykg54zzuhlxcpdcmv.spec.yaml - ######################################################################## 100.0% - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-superlu-dist-5.2.2-65vot2le3ezooz7tj6eveovly725o44x.spec.yaml - ######################################################################## 100.0% - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-hypre-2.12.1-3psjg2ka2qa26jtgitlil4vglqr67anj.spec.yaml - ######################################################################## 100.0% - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-mumps-5.1.1-phvk6yhkzqed6gjsbah6dnhlesdclild.spec.yaml - ######################################################################## 100.0% - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-netcdf-4.4.1.1-rmx4uppnhpv6kq7bh7r46zfqevgdkkgw.spec.yaml - ######################################################################## 100.0% - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64-gcc-5.4.0-netlib-scalapack-2.0.2-km7tsbgoyyywonyejkjoojskhc5knz3z.spec.yaml - ######################################################################## 100.0% - ==> Installing readline from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/readline-7.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-readline-7.0-gizxpch53zv5ufa62a2tb5lalcqgxbuc.spack - ######################################################################## 100.0% - gpg: Signature made Sun 12 Nov 2017 10:26:53 PM UTC using RSA key ID 3B7C69B2 - gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] - gpg: WARNING: This key is not certified with a trusted signature! - gpg: There is no indication that the signature belongs to the owner. - Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed readline from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/readline-7.0-gizxpch53zv5ufa62a2tb5lalcqgxbuc - ==> Installing gdbm - ==> Searching for binary cache of gdbm - ==> Installing gdbm from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/gdbm-1.13/linux-ubuntu16.04-x86_64-gcc-5.4.0-gdbm-1.13-vdhoris6wdzzb2ykax2hz7qzgizk5h3t.spack - ######################################################################## 100.0% - gpg: Signature made Sun 12 Nov 2017 10:26:51 PM UTC using RSA key ID 3B7C69B2 - gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] - gpg: WARNING: This key is not certified with a trusted signature! - gpg: There is no indication that the signature belongs to the owner. - Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed gdbm from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gdbm-1.13-vdhoris6wdzzb2ykax2hz7qzgizk5h3t - ==> Installing perl - ==> Searching for binary cache of perl - ==> Installing perl from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/perl-5.24.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-perl-5.24.1-mfzwy6y5mlbqpqvti4etpe3cgkmxkpi2.spack - ######################################################################## 100.0% - gpg: Signature made Sun 12 Nov 2017 10:27:19 PM UTC using RSA key ID 3B7C69B2 - gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] - gpg: WARNING: This key is not certified with a trusted signature! - gpg: There is no indication that the signature belongs to the owner. - Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed perl from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/perl-5.24.1-mfzwy6y5mlbqpqvti4etpe3cgkmxkpi2 - ==> Installing autoconf - ==> Searching for binary cache of autoconf - ==> Installing autoconf from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/autoconf-2.69/linux-ubuntu16.04-x86_64-gcc-5.4.0-autoconf-2.69-bvabhjiklhi7c5742ixzs7hubhid3ax2.spack - ######################################################################## 100.0% - gpg: Signature made Sun 12 Nov 2017 10:27:22 PM UTC using RSA key ID 3B7C69B2 - gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] - gpg: WARNING: This key is not certified with a trusted signature! - gpg: There is no indication that the signature belongs to the owner. - Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed autoconf from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/autoconf-2.69-bvabhjiklhi7c5742ixzs7hubhid3ax2 - ==> Installing automake - ==> Searching for binary cache of automake - ==> Installing automake from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/automake-1.15.1/linux-ubuntu16.04-x86_64-gcc-5.4.0-automake-1.15.1-kaiefe4j2lsq6b32ncrclmbeoa5z25a5.spack - ######################################################################## 100.0% - gpg: Signature made Sun 12 Nov 2017 10:27:21 PM UTC using RSA key ID 3B7C69B2 - gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] - gpg: WARNING: This key is not certified with a trusted signature! - gpg: There is no indication that the signature belongs to the owner. - Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. - ==> Successfully installed automake from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/automake-1.15.1-kaiefe4j2lsq6b32ncrclmbeoa5z25a5 - ==> libtool is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libtool-2.4.6-o2pfwjf44353ajgr42xqtvzyvqsazkgu + $ spack install gcc + ==> libsigsegv is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libsigsegv-2.11-fypapcprssrj3nstp6njprskeyynsgaz + ==> m4 is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/m4-1.4.18-suf5jtcfehivwfesrc5hjy72r4nukyel + ==> pkgconf is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pkgconf-1.4.2-fovrh7alpft646n6mhis5mml6k6e5f4v + ==> ncurses is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/ncurses-6.1-3o765ourmesfrji6yeclb4wb5w54aqbh + ==> readline is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/readline-7.0-nxhwrg7xwc6nbsm2v4ezwe63l6nfidbi + ==> gdbm is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gdbm-1.14.1-q4fpyuo7ouhkeq6d3oabtrppctpvxmes + ==> perl is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/perl-5.26.2-ic2kyoadgp3dxfejcbllyplj2wf524fo + ==> autoconf is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/autoconf-2.69-3sx2gxeibc4oasqd4o5h6lnwpcpsgd2q + ==> automake is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/automake-1.16.1-rymw7imfehycqxzj4nuy2oiw3abegooy + ==> libtool is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libtool-2.4.6-o2pfwjf44353ajgr42xqtvzyvqsazkgu ==> Installing gmp ==> Searching for binary cache of gmp + ==> Finding buildcaches in /mirror/build_cache ==> Installing gmp from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/gmp-6.1.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-gmp-6.1.2-qc4qcfz4monpllc3nqupdo7vwinf73sw.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/gmp-6.1.2/linux-ubuntu16.04-x86_64-gcc-5.4.0-gmp-6.1.2-qc4qcfz4monpllc3nqupdo7vwinf73sw.spack ######################################################################## 100.0% - gpg: Signature made Sun 12 Nov 2017 10:12:29 PM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:18:16 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed gmp from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gmp-6.1.2-qc4qcfz4monpllc3nqupdo7vwinf73sw + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gmp-6.1.2-qc4qcfz4monpllc3nqupdo7vwinf73sw ==> Installing isl ==> Searching for binary cache of isl ==> Installing isl from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/isl-0.18/linux-ubuntu16.04-x86_64-gcc-5.4.0-isl-0.18-vttqoutnsmjpm3ogb52rninksc7hq5ax.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/isl-0.18/linux-ubuntu16.04-x86_64-gcc-5.4.0-isl-0.18-vttqoutnsmjpm3ogb52rninksc7hq5ax.spack ######################################################################## 100.0% - gpg: Signature made Sun 12 Nov 2017 10:12:28 PM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:05:19 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed isl from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/isl-0.18-vttqoutnsmjpm3ogb52rninksc7hq5ax + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/isl-0.18-vttqoutnsmjpm3ogb52rninksc7hq5ax ==> Installing mpfr ==> Searching for binary cache of mpfr ==> Installing mpfr from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpfr-3.1.5/linux-ubuntu16.04-x86_64-gcc-5.4.0-mpfr-3.1.5-mdi6irzvxcbemt7yredzr36dvo6ty4sl.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpfr-3.1.6/linux-ubuntu16.04-x86_64-gcc-5.4.0-mpfr-3.1.6-jnt2nnp5pmvikbw7opueajlbwbhmjxyv.spack ######################################################################## 100.0% - gpg: Signature made Sun 12 Nov 2017 10:12:30 PM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:32:07 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed mpfr from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpfr-3.1.5-mdi6irzvxcbemt7yredzr36dvo6ty4sl + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpfr-3.1.6-jnt2nnp5pmvikbw7opueajlbwbhmjxyv ==> Installing mpc ==> Searching for binary cache of mpc ==> Installing mpc from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpc-1.0.3/linux-ubuntu16.04-x86_64-gcc-5.4.0-mpc-1.0.3-tumbpshu5hjxwextoudk5hmic6nspb3z.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpc-1.1.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-mpc-1.1.0-iuf3gc3zpgr4n4mditnxhff6x3joxi27.spack ######################################################################## 100.0% - gpg: Signature made Sun 12 Nov 2017 10:12:29 PM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:30:35 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed mpc from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpc-1.0.3-tumbpshu5hjxwextoudk5hmic6nspb3z - ==> zlib is already installed in /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb - ==> Installing gcc + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpc-1.1.0-iuf3gc3zpgr4n4mditnxhff6x3joxi27 + ==> zlib is already installed in /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.11-5nus6knzumx4ik2yl44jxtgtsl7d54xb + Installing gcc ==> Searching for binary cache of gcc + ==> Finding buildcaches in /mirror/build_cache ==> Installing gcc from binary cache - ==> Fetching file:///home/ubuntu/becker/buildcache/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-gcc-7.2.0-k3vy57euyeuyvpotwf4wezfmpo3mrtrj.spack + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0/linux-ubuntu16.04-x86_64-gcc-5.4.0-gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs.spack ######################################################################## 100.0% - gpg: Signature made Sun 12 Nov 2017 10:16:31 PM UTC using RSA key ID 3B7C69B2 + gpg: Signature made Sat Nov 10 05:22:47 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] gpg: WARNING: This key is not certified with a trusted signature! gpg: There is no indication that the signature belongs to the owner. Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 - ==> Relocating package from - /home/ubuntu/becker/spack/opt/spack to /home/ubuntu/test/spack/opt/spack. ==> Successfully installed gcc from binary cache - [+] /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-k3vy57euyeuyvpotwf4wezfmpo3mrtrj + [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs $ spack find -p gcc - ==> 1 installed packages. + spack find -p gcc + ==> 1 installed package -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- - gcc@7.2.0 /home/ubuntu/test/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-k3vy57euyeuyvpotwf4wezfmpo3mrtrj + gcc@7.2.0 /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs We can add gcc to Spack as an available compiler using the ``spack compiler add`` command. This will allow future packages to build with @@ -1738,7 +1722,7 @@ gcc@7.2.0. .. code-block:: console - $ spack compiler add /home/ubuntu/becker/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-k3vy57euyeuyvpotwf4wezfmpo3mrtrj + $ spack compiler add `spack location -i gcc@7.2.0` ==> Added 1 new compiler to /home/ubuntu/.spack/linux/compilers.yaml gcc@7.2.0 ==> Compilers are defined in the following files: diff --git a/lib/spack/docs/tutorial_modules.rst b/lib/spack/docs/tutorial_modules.rst index 2277763da6..31fb1cd749 100644 --- a/lib/spack/docs/tutorial_modules.rst +++ b/lib/spack/docs/tutorial_modules.rst @@ -149,78 +149,16 @@ how Spack can help with similar situations, as they will happen on real HPC clus For instance, it's often preferable for Spack to use vendor-provided MPI implementations than to build one itself. -The best way to follow along is to use a Docker image, which comes -with Spack and all the software used in the following parts already -pre-installed. If you want to proceed this way, read :ref:`module_file_tutorial_use_docker`. +To keep the set of software we're dealing with manageable, we're going +to uninstall everything from earlier in the tutorial. -If you don't have Docker installed or for any other reason you -prefer to work locally, follow instead :ref:`module_file_tutorial_work_locally` -to know how to clone Spack and install the software. -Be aware that the set-up will take longer and that the details of the snippets -below assume the Docker image and may need changes to work in your particular -environment. +.. code-block: console -.. _module_file_tutorial_use_docker: + $ spack uninstall -ay -^^^^^^^^^^^^^^^^^^ -Use a Docker image -^^^^^^^^^^^^^^^^^^ - -The fastest way to set-up your environment is to :ref:`use a Docker image <workflow_create_docker_image>`: - -.. code-block:: console - - $ docker pull spack/module-tutorial:latest - $ docker run --rm -h module-file-tutorial -it spack/module-tutorial:latest - root@module-file-tutorial:/# - -If you arrived at this point you should be ready to start, as all the software needed is -pre-installed in the image: - -.. code-block:: console - - root@module-file-tutorial:/# which spack - /usr/local/bin/spack - root@module-file-tutorial:/# spack find - ==> 43 installed packages. - -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- - autoconf@2.69 gdbm@1.14.1 isl@0.19 lmod@7.7.29 lua-luaposix@33.4.0 mpfr@4.0.1 pkgconf@1.4.2 zlib@1.2.11 - automake@1.16.1 git@2.9.4 libsigsegv@2.11 lua@5.3.4 m4@1.4.18 ncurses@6.1 readline@7.0 - gcc@7.2.0 gmp@6.1.2 libtool@2.4.6 lua-luafilesystem@1_6_3 mpc@1.1.0 perl@5.26.2 tcl@8.6.8 - - -- linux-ubuntu16.04-x86_64 / gcc@7.2.0 ------------------------- - bzip2@1.0.6 mpich@3.2.1 netlib-scalapack@2.0.2 netlib-scalapack@2.0.2 openssl@1.0.2o py-scipy@1.1.0 readline@7.0 - cmake@3.12.0 ncurses@6.1 netlib-scalapack@2.0.2 openblas@0.3.0 pkgconf@1.4.2 py-setuptools@39.2.0 sqlite@3.23.1 - gdbm@1.14.1 netlib-lapack@3.8.0 netlib-scalapack@2.0.2 openmpi@1.10.2 py-numpy@1.14.3 python@2.7.15 zlib@1.2.11 - -Go to :ref:`module_file_tutorial_non_hierarchical` to proceed with the tutorial. - -.. note:: - Dockerfile for this image - Those of you that want to build a similar container themselves can find the - ``Dockerfile`` and the other resources in Spack's ``share/spack/docs/docker`` - folder. - -.. _module_file_tutorial_work_locally: - -^^^^^^^^^^^^^^^^^^^^^^ -Work in a local folder -^^^^^^^^^^^^^^^^^^^^^^ - -If you don't feel like using a container, you can set-up your environment -locally. Let's start by cloning the Spack repository and moving to the directory -where it was checked out: - -.. code-block:: console - - $ git clone https://github.com/spack/spack.git - $ cd spack - -From here we'll be building the required stack of software. - -""""""""""""""""""" +^^^^^^^^^^^^^^^^^^^ Build a module tool -""""""""""""""""""" +^^^^^^^^^^^^^^^^^^^ The first thing that we need is the module tool. In this case we choose ``lmod`` as it can work with both hierarchical and non-hierarchical @@ -239,7 +177,8 @@ to remember, we'll employ the command ``spack location`` to retrieve the $ . $(spack location -i lmod)/lmod/lmod/init/bash -Now we can source the setup file and activate the :ref:`shell support <shell-support>`: +Now we can re-source the setup file and Spack modules will be put in +our module path. .. code-block:: console @@ -252,26 +191,15 @@ Now we can source the setup file and activate the :ref:`shell support <shell-sup to the documentation :ref:`here <InstallEnvironmentModules>`. -"""""""""""""""""" +^^^^^^^^^^^^^^^^^^ Add a new compiler -"""""""""""""""""" +^^^^^^^^^^^^^^^^^^ The second step is to build a recent compiler. On first use, Spack -scans the environment and automatically locates the -compiler(s) already available on the system. This is what you'll see -on Ubuntu 14.04: - -.. code-block:: console +scans the environment and automatically locates the compiler(s) +already available on the system. For this tutorial, however, we want +to use ``gcc@7.2.0``. - $ uname -a - Linux nuvolari 4.4.0-45-generic #66~14.04.1-Ubuntu SMP Wed Oct 19 15:05:38 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux - - $ spack compilers - ==> Available compilers - -- gcc ---------------------------------------------------------- - gcc@4.8 - -Let's bootstrap a more recent compiler with the one that was automatically detected: .. code-block:: console @@ -300,7 +228,7 @@ You can use this command to double check: $ module list Currently Loaded Modules: - 1) lmod-7.7-gcc-4.8-okcwjgw 2) gcc-7.2.0-gcc-4.8-twd5nqg + 1) gcc-7.2.0-gcc-5.4.0-b7smjjc Note that the 7-digit hash at the end of the generated module may vary depending on architecture or package version. Now that we have ``gcc@7.2.0`` in ``PATH`` we @@ -309,38 +237,23 @@ can finally add it to the list of compilers known to Spack: .. code-block:: console $ spack compiler add - ==> Added 1 new compiler to ~/.spack/linux/compilers.yaml + ==> Added 1 new compiler to /home/spack1/.spack/linux/compilers.yaml gcc@7.2.0 + ==> Compilers are defined in the following files: + /home/spack1/.spack/linux/compilers.yaml - $ spack compilers + $ spack compiler list ==> Available compilers - -- gcc ---------------------------------------------------------- - gcc@7.2.0 gcc@4.8 + -- clang ubuntu16.04-x86_64 ------------------------------------- + clang@3.8.0-2ubuntu4 clang@3.7.1-2ubuntu2 + -- gcc ubuntu16.04-x86_64 --------------------------------------- + gcc@7.2.0 gcc@5.4.0 gcc@4.7 -"""""""""""""""""""""""""""""""""""""""""""""""""""" -Build the software that will be used in the tutorial -"""""""""""""""""""""""""""""""""""""""""""""""""""" -The last step is to install the software stack needed later on. To mimic -an external installation of an MPI provider we'll install ``openmpi`` on -the system we are working on. On Ubuntu 14.04 it boils down to: - -.. code-block:: console - - $ sudo apt-get install openmpi-bin openmpi-common libopenmpi-dev - ... - -but the exact command varies according to your OS. Then we need to prepare -a ``packages.yaml`` file that instructs Spack to use an externally provided MPI: - -.. code-block:: yaml - - packages: - openmpi: - buildable: False - paths: - openmpi@1.6: /usr +^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ +Build the software that will be used in the tutorial +^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Finally, we should use Spack to install the packages used in the examples: @@ -363,24 +276,36 @@ If you arrived to this point you should have an environment that looks similar t .. code-block:: console - root@module-file-tutorial:/# module avail - - -------------------------------------------- /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64 --------------------------------------------- - autoconf-2.69-gcc-5.4.0-cbvv5rj lua-luaposix-33.4.0-gcc-5.4.0-i7w7ynf perl-5.26.2-gcc-5.4.0-n2k4mza - automake-1.16.1-gcc-5.4.0-lykrrr4 m4-1.4.18-gcc-5.4.0-3z33ecf pkgconf-1.4.2-gcc-5.4.0-fovrh7a - bzip2-1.0.6-gcc-7.2.0-mwamumj mpc-1.1.0-gcc-5.4.0-56lbd3h pkgconf-1.4.2-gcc-7.2.0-yoxwmgb - cmake-3.12.0-gcc-7.2.0-6ovorxs mpfr-4.0.1-gcc-5.4.0-dy5r7hi py-numpy-1.14.3-gcc-7.2.0-t3loxvu - gcc-7.2.0-gcc-5.4.0-wwhgyej mpich-3.2.1-gcc-7.2.0-vt5xcat py-scipy-1.1.0-gcc-7.2.0-fdiryak - gdbm-1.14.1-gcc-5.4.0-q4fpyuo ncurses-6.1-gcc-5.4.0-3o765ou py-setuptools-39.2.0-gcc-7.2.0-jqhycal - gdbm-1.14.1-gcc-7.2.0-zk5lhob ncurses-6.1-gcc-7.2.0-xcgzqdv python-2.7.15-gcc-7.2.0-c7pnzul - git-2.9.4-gcc-5.4.0-mkaoyhz netlib-lapack-3.8.0-gcc-7.2.0-7apabqu readline-7.0-gcc-5.4.0-nxhwrg7 - gmp-6.1.2-gcc-5.4.0-qc4qcfz netlib-scalapack-2.0.2-gcc-7.2.0-3bz5rxx readline-7.0-gcc-7.2.0-ccruj2i - isl-0.19-gcc-5.4.0-hsl7f52 netlib-scalapack-2.0.2-gcc-7.2.0-6i5qsqx sqlite-3.23.1-gcc-7.2.0-5ltus3a - libsigsegv-2.11-gcc-5.4.0-fypapcp netlib-scalapack-2.0.2-gcc-7.2.0-uhzmwog tcl-8.6.8-gcc-5.4.0-qhwyccy - libtool-2.4.6-gcc-5.4.0-o2pfwjf netlib-scalapack-2.0.2-gcc-7.2.0-z52ltyy zlib-1.2.11-gcc-5.4.0-5nus6kn - lmod-7.7.29-gcc-5.4.0-wl6mywv openblas-0.3.0-gcc-7.2.0-pdatzbi zlib-1.2.11-gcc-7.2.0-ezuwp4p - lua-5.3.4-gcc-5.4.0-izvaota openmpi-1.10.2-gcc-7.2.0-6oewzwj - lua-luafilesystem-1_6_3-gcc-5.4.0-ywlmaou openssl-1.0.2o-gcc-7.2.0-cvldq3v + $ module avail + + ----------------------------------------------- /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64 ----------------------------------------------- + autoconf-2.69-gcc-5.4.0-3sx2gxe libsigsegv-2.11-gcc-7.2.0-g67xpfd openssl-1.0.2o-gcc-5.4.0-b4y3w3b + autoconf-2.69-gcc-7.2.0-yb2makb libtool-2.4.6-gcc-5.4.0-o2pfwjf openssl-1.0.2o-gcc-7.2.0-cvldq3v + automake-1.16.1-gcc-5.4.0-rymw7im libtool-2.4.6-gcc-7.2.0-kt2udm6 pcre-8.42-gcc-5.4.0-gt5lgzi + automake-1.16.1-gcc-7.2.0-qoowd5q libxml2-2.9.8-gcc-5.4.0-wpexsph perl-5.26.2-gcc-5.4.0-ic2kyoa + bzip2-1.0.6-gcc-5.4.0-ufczdvs libxml2-2.9.8-gcc-7.2.0-47gf5kk perl-5.26.2-gcc-7.2.0-fdwz5yu + bzip2-1.0.6-gcc-7.2.0-mwamumj lmod-7.8-gcc-5.4.0-kmhks3p pkgconf-1.4.2-gcc-5.4.0-fovrh7a + cmake-3.12.3-gcc-7.2.0-obqgn2v lua-5.3.4-gcc-5.4.0-cpfeo2w pkgconf-1.4.2-gcc-7.2.0-yoxwmgb + curl-7.60.0-gcc-5.4.0-vzqreb2 lua-luafilesystem-1_6_3-gcc-5.4.0-alakjim py-numpy-1.15.2-gcc-7.2.0-wbwtcxf + diffutils-3.6-gcc-5.4.0-2rhuivg lua-luaposix-33.4.0-gcc-5.4.0-7wqhwoc py-scipy-1.1.0-gcc-7.2.0-d5n3cph + diffutils-3.6-gcc-7.2.0-eauxwi7 m4-1.4.18-gcc-5.4.0-suf5jtc py-setuptools-40.4.3-gcc-7.2.0-5dbwfwn + expat-2.2.5-gcc-5.4.0-emyv67q m4-1.4.18-gcc-7.2.0-wdzvagl python-2.7.15-gcc-7.2.0-ucmr2mn + findutils-4.6.0-gcc-7.2.0-ca4b7zq mpc-1.1.0-gcc-5.4.0-iuf3gc3 readline-7.0-gcc-5.4.0-nxhwrg7 + gcc-7.2.0-gcc-5.4.0-b7smjjc (L) mpfr-3.1.6-gcc-5.4.0-jnt2nnp readline-7.0-gcc-7.2.0-ccruj2i + gdbm-1.14.1-gcc-5.4.0-q4fpyuo mpich-3.2.1-gcc-7.2.0-vt5xcat sqlite-3.23.1-gcc-7.2.0-5ltus3a + gdbm-1.14.1-gcc-7.2.0-zk5lhob ncurses-6.1-gcc-5.4.0-3o765ou tar-1.30-gcc-5.4.0-dk7lrpo + gettext-0.19.8.1-gcc-5.4.0-tawgous ncurses-6.1-gcc-7.2.0-xcgzqdv tcl-8.6.8-gcc-5.4.0-qhwyccy + git-2.19.1-gcc-5.4.0-p3gjnfa netlib-lapack-3.8.0-gcc-7.2.0-fj7nayd texinfo-6.5-gcc-7.2.0-cuqnfgf + gmp-6.1.2-gcc-5.4.0-qc4qcfz netlib-scalapack-2.0.2-gcc-7.2.0-67nmj7g unzip-6.0-gcc-5.4.0-ba23fbg + hwloc-1.11.9-gcc-7.2.0-gbyc65s netlib-scalapack-2.0.2-gcc-7.2.0-6jgjbyg util-macros-1.19.1-gcc-7.2.0-t62kozq + isl-0.18-gcc-5.4.0-vttqout netlib-scalapack-2.0.2-gcc-7.2.0-prgo67d xz-5.2.4-gcc-5.4.0-teneqii + libbsd-0.8.6-gcc-5.4.0-f4qkkwm netlib-scalapack-2.0.2-gcc-7.2.0-zxpt252 xz-5.2.4-gcc-7.2.0-rql5kog + libiconv-1.15-gcc-5.4.0-u2x3umv numactl-2.0.11-gcc-7.2.0-rifwktk zlib-1.2.11-gcc-5.4.0-5nus6kn + libpciaccess-0.13.5-gcc-7.2.0-riipwi2 openblas-0.3.3-gcc-7.2.0-xxoxfh4 zlib-1.2.11-gcc-7.2.0-ezuwp4p + libsigsegv-2.11-gcc-5.4.0-fypapcp openmpi-3.1.3-gcc-7.2.0-do5xfer + + Where: + L: Module is loaded Use "module spider" to find all possible modules. Use "module keyword key1 key2 ..." to search for all possible modules matching any of the "keys". @@ -391,24 +316,24 @@ Taking a look at the ``gcc`` module you'll see, for example: .. code-block:: console - root@module-file-tutorial:/# module show gcc-7.2.0-gcc-5.4.0-wwhgyej - ---------------------------------------------------------------------------------------------------------------------------------------------- - /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64/gcc-7.2.0-gcc-5.4.0-wwhgyej: - ---------------------------------------------------------------------------------------------------------------------------------------------- + $ module show gcc-7.2.0-gcc-5.4.0-b7smjjc + ------------------------------------------------------------------------------------------------------------------------------------------------------------------- + /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64/gcc-7.2.0-gcc-5.4.0-b7smjjc: + ------------------------------------------------------------------------------------------------------------------------------------------------------------------- whatis("The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages. ") - prepend_path("PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin") - prepend_path("MANPATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/share/man") - prepend_path("LIBRARY_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/lib") - prepend_path("LD_LIBRARY_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/lib") - prepend_path("LIBRARY_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/lib64") - prepend_path("LD_LIBRARY_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/lib64") - prepend_path("CPATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/include") - prepend_path("CMAKE_PREFIX_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/") - setenv("CC","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gcc") - setenv("CXX","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/g++") - setenv("FC","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") - setenv("F77","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") - setenv("F90","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") + prepend_path("PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin") + prepend_path("MANPATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/share/man") + prepend_path("LD_LIBRARY_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/lib") + prepend_path("LIBRARY_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/lib") + prepend_path("LD_LIBRARY_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/lib64") + prepend_path("LIBRARY_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/lib64") + prepend_path("CPATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/include") + prepend_path("CMAKE_PREFIX_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/") + setenv("CC","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gcc") + setenv("CXX","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/g++") + setenv("FC","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") + setenv("F77","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") + setenv("F90","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") help([[The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages. ]]) @@ -438,22 +363,26 @@ Next you should regenerate all the module files: .. code-block:: console - root@module-file-tutorial:/# spack module tcl refresh + $ spack module tcl refresh ==> You are about to regenerate tcl module files for: -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- - cbvv5rj autoconf@2.69 qc4qcfz gmp@6.1.2 izvaota lua@5.3.4 dy5r7hi mpfr@4.0.1 qhwyccy tcl@8.6.8 - lykrrr4 automake@1.16.1 hsl7f52 isl@0.19 ywlmaou lua-luafilesystem@1_6_3 3o765ou ncurses@6.1 5nus6kn zlib@1.2.11 - wwhgyej gcc@7.2.0 fypapcp libsigsegv@2.11 i7w7ynf lua-luaposix@33.4.0 n2k4mza perl@5.26.2 - q4fpyuo gdbm@1.14.1 o2pfwjf libtool@2.4.6 3z33ecf m4@1.4.18 fovrh7a pkgconf@1.4.2 - mkaoyhz git@2.9.4 wl6mywv lmod@7.7.29 56lbd3h mpc@1.1.0 nxhwrg7 readline@7.0 + 3sx2gxe autoconf@2.69 b7smjjc gcc@7.2.0 f4qkkwm libbsd@0.8.6 cpfeo2w lua@5.3.4 3o765ou ncurses@6.1 dk7lrpo tar@1.30 + rymw7im automake@1.16.1 q4fpyuo gdbm@1.14.1 u2x3umv libiconv@1.15 alakjim lua-luafilesystem@1_6_3 b4y3w3b openssl@1.0.2o qhwyccy tcl@8.6.8 + ufczdvs bzip2@1.0.6 tawgous gettext@0.19.8.1 fypapcp libsigsegv@2.11 7wqhwoc lua-luaposix@33.4.0 gt5lgzi pcre@8.42 ba23fbg unzip@6.0 + vzqreb2 curl@7.60.0 p3gjnfa git@2.19.1 o2pfwjf libtool@2.4.6 suf5jtc m4@1.4.18 ic2kyoa perl@5.26.2 teneqii xz@5.2.4 + 2rhuivg diffutils@3.6 qc4qcfz gmp@6.1.2 wpexsph libxml2@2.9.8 iuf3gc3 mpc@1.1.0 fovrh7a pkgconf@1.4.2 5nus6kn zlib@1.2.11 + emyv67q expat@2.2.5 vttqout isl@0.18 kmhks3p lmod@7.8 jnt2nnp mpfr@3.1.6 nxhwrg7 readline@7.0 -- linux-ubuntu16.04-x86_64 / gcc@7.2.0 ------------------------- - mwamumj bzip2@1.0.6 7apabqu netlib-lapack@3.8.0 pdatzbi openblas@0.3.0 fdiryak py-scipy@1.1.0 ezuwp4p zlib@1.2.11 - 6ovorxs cmake@3.12.0 6i5qsqx netlib-scalapack@2.0.2 6oewzwj openmpi@1.10.2 jqhycal py-setuptools@39.2.0 - zk5lhob gdbm@1.14.1 uhzmwog netlib-scalapack@2.0.2 cvldq3v openssl@1.0.2o c7pnzul python@2.7.15 - vt5xcat mpich@3.2.1 3bz5rxx netlib-scalapack@2.0.2 yoxwmgb pkgconf@1.4.2 ccruj2i readline@7.0 - xcgzqdv ncurses@6.1 z52ltyy netlib-scalapack@2.0.2 t3loxvu py-numpy@1.14.3 5ltus3a sqlite@3.23.1 + yb2makb autoconf@2.69 riipwi2 libpciaccess@0.13.5 6jgjbyg netlib-scalapack@2.0.2 fdwz5yu perl@5.26.2 cuqnfgf texinfo@6.5 + qoowd5q automake@1.16.1 g67xpfd libsigsegv@2.11 zxpt252 netlib-scalapack@2.0.2 yoxwmgb pkgconf@1.4.2 t62kozq util-macros@1.19.1 + mwamumj bzip2@1.0.6 kt2udm6 libtool@2.4.6 67nmj7g netlib-scalapack@2.0.2 wbwtcxf py-numpy@1.15.2 rql5kog xz@5.2.4 + obqgn2v cmake@3.12.3 47gf5kk libxml2@2.9.8 prgo67d netlib-scalapack@2.0.2 d5n3cph py-scipy@1.1.0 ezuwp4p zlib@1.2.11 + eauxwi7 diffutils@3.6 wdzvagl m4@1.4.18 rifwktk numactl@2.0.11 5dbwfwn py-setuptools@40.4.3 + ca4b7zq findutils@4.6.0 vt5xcat mpich@3.2.1 xxoxfh4 openblas@0.3.3 ucmr2mn python@2.7.15 + zk5lhob gdbm@1.14.1 xcgzqdv ncurses@6.1 do5xfer openmpi@3.1.3 ccruj2i readline@7.0 + gbyc65s hwloc@1.11.9 fj7nayd netlib-lapack@3.8.0 cvldq3v openssl@1.0.2o 5ltus3a sqlite@3.23.1 ==> Do you want to proceed? [y/n] y ==> Regenerating tcl module files @@ -463,21 +392,21 @@ paths have disappeared: .. code-block:: console - root@module-file-tutorial:/# module show gcc-7.2.0-gcc-5.4.0-wwhgyej - ---------------------------------------------------------------------------------------------------------------------------------------------- - /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64/gcc-7.2.0-gcc-5.4.0-wwhgyej: - ---------------------------------------------------------------------------------------------------------------------------------------------- + $ module show gcc-7.2.0-gcc-5.4.0-b7smjjc + ------------------------------------------------------------------------------------------------------------------------------------------------------------------- + /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64/gcc-7.2.0-gcc-5.4.0-b7smjjc: + ------------------------------------------------------------------------------------------------------------------------------------------------------------------- whatis("The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages. ") - prepend_path("PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin") - prepend_path("MANPATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/share/man") - prepend_path("LD_LIBRARY_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/lib") - prepend_path("LD_LIBRARY_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/lib64") - prepend_path("CMAKE_PREFIX_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/") - setenv("CC","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gcc") - setenv("CXX","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/g++") - setenv("FC","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") - setenv("F77","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") - setenv("F90","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") + prepend_path("PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin") + prepend_path("MANPATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/share/man") + prepend_path("LD_LIBRARY_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/lib") + prepend_path("LD_LIBRARY_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/lib64") + prepend_path("CMAKE_PREFIX_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/") + setenv("CC","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gcc") + setenv("CXX","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/g++") + setenv("FC","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") + setenv("F77","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") + setenv("F90","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") help([[The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages. ]]) @@ -506,46 +435,55 @@ To do this you should add a ``blacklist`` keyword to ``~/.spack/modules.yaml``: and regenerate the module files: +This time it is convenient to pass the option ``--delete-tree`` to the command that +regenerates the module files to instruct it to delete the existing tree and regenerate +a new one instead of overwriting the files in the existing directory. + .. code-block:: console - root@module-file-tutorial:/# spack module tcl refresh --delete-tree + $ spack module tcl refresh --delete-tree ==> You are about to regenerate tcl module files for: -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- - cbvv5rj autoconf@2.69 qc4qcfz gmp@6.1.2 izvaota lua@5.3.4 dy5r7hi mpfr@4.0.1 qhwyccy tcl@8.6.8 - lykrrr4 automake@1.16.1 hsl7f52 isl@0.19 ywlmaou lua-luafilesystem@1_6_3 3o765ou ncurses@6.1 5nus6kn zlib@1.2.11 - wwhgyej gcc@7.2.0 fypapcp libsigsegv@2.11 i7w7ynf lua-luaposix@33.4.0 n2k4mza perl@5.26.2 - q4fpyuo gdbm@1.14.1 o2pfwjf libtool@2.4.6 3z33ecf m4@1.4.18 fovrh7a pkgconf@1.4.2 - mkaoyhz git@2.9.4 wl6mywv lmod@7.7.29 56lbd3h mpc@1.1.0 nxhwrg7 readline@7.0 + 3sx2gxe autoconf@2.69 b7smjjc gcc@7.2.0 f4qkkwm libbsd@0.8.6 cpfeo2w lua@5.3.4 3o765ou ncurses@6.1 dk7lrpo tar@1.30 + rymw7im automake@1.16.1 q4fpyuo gdbm@1.14.1 u2x3umv libiconv@1.15 alakjim lua-luafilesystem@1_6_3 b4y3w3b openssl@1.0.2o qhwyccy tcl@8.6.8 + ufczdvs bzip2@1.0.6 tawgous gettext@0.19.8.1 fypapcp libsigsegv@2.11 7wqhwoc lua-luaposix@33.4.0 gt5lgzi pcre@8.42 ba23fbg unzip@6.0 + vzqreb2 curl@7.60.0 p3gjnfa git@2.19.1 o2pfwjf libtool@2.4.6 suf5jtc m4@1.4.18 ic2kyoa perl@5.26.2 teneqii xz@5.2.4 + 2rhuivg diffutils@3.6 qc4qcfz gmp@6.1.2 wpexsph libxml2@2.9.8 iuf3gc3 mpc@1.1.0 fovrh7a pkgconf@1.4.2 5nus6kn zlib@1.2.11 + emyv67q expat@2.2.5 vttqout isl@0.18 kmhks3p lmod@7.8 jnt2nnp mpfr@3.1.6 nxhwrg7 readline@7.0 -- linux-ubuntu16.04-x86_64 / gcc@7.2.0 ------------------------- - mwamumj bzip2@1.0.6 7apabqu netlib-lapack@3.8.0 pdatzbi openblas@0.3.0 fdiryak py-scipy@1.1.0 ezuwp4p zlib@1.2.11 - 6ovorxs cmake@3.12.0 6i5qsqx netlib-scalapack@2.0.2 6oewzwj openmpi@1.10.2 jqhycal py-setuptools@39.2.0 - zk5lhob gdbm@1.14.1 uhzmwog netlib-scalapack@2.0.2 cvldq3v openssl@1.0.2o c7pnzul python@2.7.15 - vt5xcat mpich@3.2.1 3bz5rxx netlib-scalapack@2.0.2 yoxwmgb pkgconf@1.4.2 ccruj2i readline@7.0 - xcgzqdv ncurses@6.1 z52ltyy netlib-scalapack@2.0.2 t3loxvu py-numpy@1.14.3 5ltus3a sqlite@3.23.1 + yb2makb autoconf@2.69 riipwi2 libpciaccess@0.13.5 6jgjbyg netlib-scalapack@2.0.2 fdwz5yu perl@5.26.2 cuqnfgf texinfo@6.5 + qoowd5q automake@1.16.1 g67xpfd libsigsegv@2.11 zxpt252 netlib-scalapack@2.0.2 yoxwmgb pkgconf@1.4.2 t62kozq util-macros@1.19.1 + mwamumj bzip2@1.0.6 kt2udm6 libtool@2.4.6 67nmj7g netlib-scalapack@2.0.2 wbwtcxf py-numpy@1.15.2 rql5kog xz@5.2.4 + obqgn2v cmake@3.12.3 47gf5kk libxml2@2.9.8 prgo67d netlib-scalapack@2.0.2 d5n3cph py-scipy@1.1.0 ezuwp4p zlib@1.2.11 + eauxwi7 diffutils@3.6 wdzvagl m4@1.4.18 rifwktk numactl@2.0.11 5dbwfwn py-setuptools@40.4.3 + ca4b7zq findutils@4.6.0 vt5xcat mpich@3.2.1 xxoxfh4 openblas@0.3.3 ucmr2mn python@2.7.15 + zk5lhob gdbm@1.14.1 xcgzqdv ncurses@6.1 do5xfer openmpi@3.1.3 ccruj2i readline@7.0 + gbyc65s hwloc@1.11.9 fj7nayd netlib-lapack@3.8.0 cvldq3v openssl@1.0.2o 5ltus3a sqlite@3.23.1 ==> Do you want to proceed? [y/n] y ==> Regenerating tcl module files - root@module-file-tutorial:/# module avail - - -------------------------------------------- /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64 --------------------------------------------- - bzip2-1.0.6-gcc-7.2.0-mwamumj netlib-scalapack-2.0.2-gcc-7.2.0-6i5qsqx py-numpy-1.14.3-gcc-7.2.0-t3loxvu - cmake-3.12.0-gcc-7.2.0-6ovorxs netlib-scalapack-2.0.2-gcc-7.2.0-uhzmwog py-scipy-1.1.0-gcc-7.2.0-fdiryak - gdbm-1.14.1-gcc-7.2.0-zk5lhob netlib-scalapack-2.0.2-gcc-7.2.0-z52ltyy py-setuptools-39.2.0-gcc-7.2.0-jqhycal - mpich-3.2.1-gcc-7.2.0-vt5xcat openblas-0.3.0-gcc-7.2.0-pdatzbi python-2.7.15-gcc-7.2.0-c7pnzul - ncurses-6.1-gcc-7.2.0-xcgzqdv openmpi-1.10.2-gcc-7.2.0-6oewzwj readline-7.0-gcc-7.2.0-ccruj2i - netlib-lapack-3.8.0-gcc-7.2.0-7apabqu openssl-1.0.2o-gcc-7.2.0-cvldq3v sqlite-3.23.1-gcc-7.2.0-5ltus3a - netlib-scalapack-2.0.2-gcc-7.2.0-3bz5rxx pkgconf-1.4.2-gcc-7.2.0-yoxwmgb zlib-1.2.11-gcc-7.2.0-ezuwp4p + $ module avail + + ----------------------------------------------- /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64 ----------------------------------------------- + autoconf-2.69-gcc-7.2.0-yb2makb m4-1.4.18-gcc-7.2.0-wdzvagl perl-5.26.2-gcc-7.2.0-fdwz5yu + automake-1.16.1-gcc-7.2.0-qoowd5q mpich-3.2.1-gcc-7.2.0-vt5xcat pkgconf-1.4.2-gcc-7.2.0-yoxwmgb + bzip2-1.0.6-gcc-7.2.0-mwamumj ncurses-6.1-gcc-7.2.0-xcgzqdv py-numpy-1.15.2-gcc-7.2.0-wbwtcxf + cmake-3.12.3-gcc-7.2.0-obqgn2v netlib-lapack-3.8.0-gcc-7.2.0-fj7nayd py-scipy-1.1.0-gcc-7.2.0-d5n3cph + diffutils-3.6-gcc-7.2.0-eauxwi7 netlib-scalapack-2.0.2-gcc-7.2.0-67nmj7g py-setuptools-40.4.3-gcc-7.2.0-5dbwfwn + findutils-4.6.0-gcc-7.2.0-ca4b7zq netlib-scalapack-2.0.2-gcc-7.2.0-6jgjbyg python-2.7.15-gcc-7.2.0-ucmr2mn + gdbm-1.14.1-gcc-7.2.0-zk5lhob netlib-scalapack-2.0.2-gcc-7.2.0-prgo67d readline-7.0-gcc-7.2.0-ccruj2i + hwloc-1.11.9-gcc-7.2.0-gbyc65s netlib-scalapack-2.0.2-gcc-7.2.0-zxpt252 sqlite-3.23.1-gcc-7.2.0-5ltus3a + libpciaccess-0.13.5-gcc-7.2.0-riipwi2 numactl-2.0.11-gcc-7.2.0-rifwktk texinfo-6.5-gcc-7.2.0-cuqnfgf + libsigsegv-2.11-gcc-7.2.0-g67xpfd openblas-0.3.3-gcc-7.2.0-xxoxfh4 util-macros-1.19.1-gcc-7.2.0-t62kozq + libtool-2.4.6-gcc-7.2.0-kt2udm6 openmpi-3.1.3-gcc-7.2.0-do5xfer xz-5.2.4-gcc-7.2.0-rql5kog + libxml2-2.9.8-gcc-7.2.0-47gf5kk openssl-1.0.2o-gcc-7.2.0-cvldq3v zlib-1.2.11-gcc-7.2.0-ezuwp4p Use "module spider" to find all possible modules. Use "module keyword key1 key2 ..." to search for all possible modules matching any of the "keys". -This time it is convenient to pass the option ``--delete-tree`` to the command that -regenerates the module files to instruct it to delete the existing tree and regenerate -a new one instead of overwriting the files in the existing directory. - If you look closely you'll see though that we went too far in blacklisting modules: the module for ``gcc@7.2.0`` disappeared as it was bootstrapped with ``gcc@5.4.0``. To specify exceptions to the blacklist rules you can use ``whitelist``: @@ -567,7 +505,7 @@ exceptions to the blacklist rules you can use ``whitelist``: .. code-block:: console - root@module-file-tutorial:/# spack module tcl refresh -y + $ spack module tcl refresh -y ==> Regenerating tcl module files @@ -575,15 +513,14 @@ you'll see that now the module for ``gcc@7.2.0`` has reappeared: .. code-block:: console - root@module-file-tutorial:/# module av gcc-7.2.0-gcc-5.4.0-wwhgyej + $ module avail gcc-7.2.0-gcc-5.4.0-b7smjjc - -------------------------------------------- /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64 --------------------------------------------- - gcc-7.2.0-gcc-5.4.0-wwhgyej + -------------------------------------------- /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64 --------------------------------------------- + gcc-7.2.0-gcc-5.4.0-b7smjjc Use "module spider" to find all possible modules. Use "module keyword key1 key2 ..." to search for all possible modules matching any of the "keys". - An additional possibility that you can leverage to unclutter the environment is that of preventing the generation of module files for implicitly installed packages. In this case all one needs to do is to add the following line: @@ -631,10 +568,10 @@ If you try to regenerate the module files now you will get an error: .. code-block:: console - root@module-file-tutorial:/# spack module tcl refresh --delete-tree -y + $ spack module tcl refresh --delete-tree -y ==> Error: Name clashes detected in module files: - file: /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64/netlib-scalapack-2.0.2-gcc-7.2.0 + file: /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64/netlib-scalapack-2.0.2-gcc-7.2.0 spec: netlib-scalapack@2.0.2%gcc@7.2.0 build_type=RelWithDebInfo ~pic+shared arch=linux-ubuntu16.04-x86_64 spec: netlib-scalapack@2.0.2%gcc@7.2.0 build_type=RelWithDebInfo ~pic+shared arch=linux-ubuntu16.04-x86_64 spec: netlib-scalapack@2.0.2%gcc@7.2.0 build_type=RelWithDebInfo ~pic+shared arch=linux-ubuntu16.04-x86_64 @@ -678,18 +615,24 @@ Regenerating module files now we obtain: .. code-block:: console - root@module-file-tutorial:/# spack module tcl refresh --delete-tree -y + $ spack module tcl refresh --delete-tree -y ==> Regenerating tcl module files - - root@module-file-tutorial:/# module av - - -------------------------------------------- /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64 --------------------------------------------- - bzip2-1.0.6-gcc-7.2.0 netlib-lapack-3.8.0-gcc-7.2.0 openmpi-1.10.2-gcc-7.2.0 python-2.7.15-gcc-7.2.0 - cmake-3.12.0-gcc-7.2.0 netlib-scalapack-2.0.2-gcc-7.2.0-netlib-mpich openssl-1.0.2o-gcc-7.2.0 readline-7.0-gcc-7.2.0 - gcc-7.2.0-gcc-5.4.0 netlib-scalapack-2.0.2-gcc-7.2.0-netlib-openmpi pkgconf-1.4.2-gcc-7.2.0 sqlite-3.23.1-gcc-7.2.0 - gdbm-1.14.1-gcc-7.2.0 netlib-scalapack-2.0.2-gcc-7.2.0-openblas-mpich py-numpy-1.14.3-gcc-7.2.0-openblas zlib-1.2.11-gcc-7.2.0 - mpich-3.2.1-gcc-7.2.0 netlib-scalapack-2.0.2-gcc-7.2.0-openblas-openmpi py-scipy-1.1.0-gcc-7.2.0-openblas - ncurses-6.1-gcc-7.2.0 openblas-0.3.0-gcc-7.2.0 py-setuptools-39.2.0-gcc-7.2.0 + $ module avail + + ----------------------------------------------- /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64 ----------------------------------------------- + autoconf-2.69-gcc-7.2.0 m4-1.4.18-gcc-7.2.0 pkgconf-1.4.2-gcc-7.2.0 + automake-1.16.1-gcc-7.2.0 mpich-3.2.1-gcc-7.2.0 py-numpy-1.15.2-gcc-7.2.0-openblas + bzip2-1.0.6-gcc-7.2.0 ncurses-6.1-gcc-7.2.0 py-scipy-1.1.0-gcc-7.2.0-openblas + cmake-3.12.3-gcc-7.2.0 netlib-lapack-3.8.0-gcc-7.2.0 py-setuptools-40.4.3-gcc-7.2.0 + diffutils-3.6-gcc-7.2.0 netlib-scalapack-2.0.2-gcc-7.2.0-netlib-mpich python-2.7.15-gcc-7.2.0 + findutils-4.6.0-gcc-7.2.0 netlib-scalapack-2.0.2-gcc-7.2.0-netlib-openmpi readline-7.0-gcc-7.2.0 + gcc-7.2.0-gcc-5.4.0 netlib-scalapack-2.0.2-gcc-7.2.0-openblas-mpich sqlite-3.23.1-gcc-7.2.0 + gdbm-1.14.1-gcc-7.2.0 netlib-scalapack-2.0.2-gcc-7.2.0-openblas-openmpi texinfo-6.5-gcc-7.2.0 + hwloc-1.11.9-gcc-7.2.0 numactl-2.0.11-gcc-7.2.0 util-macros-1.19.1-gcc-7.2.0 + libpciaccess-0.13.5-gcc-7.2.0 openblas-0.3.3-gcc-7.2.0 xz-5.2.4-gcc-7.2.0 + libsigsegv-2.11-gcc-7.2.0 openmpi-3.1.3-gcc-7.2.0 zlib-1.2.11-gcc-7.2.0 + libtool-2.4.6-gcc-7.2.0 openssl-1.0.2o-gcc-7.2.0 + libxml2-2.9.8-gcc-7.2.0 perl-5.26.2-gcc-7.2.0 Use "module spider" to find all possible modules. Use "module keyword key1 key2 ..." to search for all possible modules matching any of the "keys". @@ -725,19 +668,24 @@ The final result should look like: .. code-block:: console - root@module-file-tutorial:/# spack module tcl refresh --delete-tree -y + $ spack module tcl refresh --delete-tree -y ==> Regenerating tcl module files - root@module-file-tutorial:/# module av - - -------------------------------------------- /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64 --------------------------------------------- - bzip2/1.0.6-gcc-7.2.0 netlib-scalapack/2.0.2-gcc-7.2.0-netlib-openmpi py-scipy/1.1.0-gcc-7.2.0-openblas - cmake/3.12.0-gcc-7.2.0 netlib-scalapack/2.0.2-gcc-7.2.0-openblas-mpich py-setuptools/39.2.0-gcc-7.2.0 - gcc/7.2.0-gcc-5.4.0 netlib-scalapack/2.0.2-gcc-7.2.0-openblas-openmpi (D) python/2.7.15-gcc-7.2.0 - gdbm/1.14.1-gcc-7.2.0 openblas/0.3.0-gcc-7.2.0 readline/7.0-gcc-7.2.0 - mpich/3.2.1-gcc-7.2.0 openmpi/1.10.2-gcc-7.2.0 sqlite/3.23.1-gcc-7.2.0 - ncurses/6.1-gcc-7.2.0 openssl/1.0.2o-gcc-7.2.0 zlib/1.2.11-gcc-7.2.0 - netlib-lapack/3.8.0-gcc-7.2.0 pkgconf/1.4.2-gcc-7.2.0 - netlib-scalapack/2.0.2-gcc-7.2.0-netlib-mpich py-numpy/1.14.3-gcc-7.2.0-openblas + $ module avail + + ----------------------------------------------- /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64 ----------------------------------------------- + autoconf/2.69-gcc-7.2.0 m4/1.4.18-gcc-7.2.0 pkgconf/1.4.2-gcc-7.2.0 + automake/1.16.1-gcc-7.2.0 mpich/3.2.1-gcc-7.2.0 py-numpy/1.15.2-gcc-7.2.0-openblas + bzip2/1.0.6-gcc-7.2.0 ncurses/6.1-gcc-7.2.0 py-scipy/1.1.0-gcc-7.2.0-openblas + cmake/3.12.3-gcc-7.2.0 netlib-lapack/3.8.0-gcc-7.2.0 py-setuptools/40.4.3-gcc-7.2.0 + diffutils/3.6-gcc-7.2.0 netlib-scalapack/2.0.2-gcc-7.2.0-netlib-mpich python/2.7.15-gcc-7.2.0 + findutils/4.6.0-gcc-7.2.0 netlib-scalapack/2.0.2-gcc-7.2.0-netlib-openmpi readline/7.0-gcc-7.2.0 + gcc/7.2.0-gcc-5.4.0 netlib-scalapack/2.0.2-gcc-7.2.0-openblas-mpich sqlite/3.23.1-gcc-7.2.0 + gdbm/1.14.1-gcc-7.2.0 netlib-scalapack/2.0.2-gcc-7.2.0-openblas-openmpi (D) texinfo/6.5-gcc-7.2.0 + hwloc/1.11.9-gcc-7.2.0 numactl/2.0.11-gcc-7.2.0 util-macros/1.19.1-gcc-7.2.0 + libpciaccess/0.13.5-gcc-7.2.0 openblas/0.3.3-gcc-7.2.0 xz/5.2.4-gcc-7.2.0 + libsigsegv/2.11-gcc-7.2.0 openmpi/3.1.3-gcc-7.2.0 zlib/1.2.11-gcc-7.2.0 + libtool/2.4.6-gcc-7.2.0 openssl/1.0.2o-gcc-7.2.0 + libxml2/2.9.8-gcc-7.2.0 perl/5.26.2-gcc-7.2.0 Where: D: Default Module @@ -799,26 +747,26 @@ Regenerating the module files results in something like: .. code-block:: console :emphasize-lines: 15 - root@module-file-tutorial:/# spack module tcl refresh -y + $ spack module tcl refresh -y ==> Regenerating tcl module files - root@module-file-tutorial:/# module show gcc - ---------------------------------------------------------------------------------------------------------------------------------------------- - /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64/gcc/7.2.0-gcc-5.4.0: - ---------------------------------------------------------------------------------------------------------------------------------------------- + $ module show gcc + ------------------------------------------------------------------------------------------------------------------------------------------------------------------- + /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64/gcc/7.2.0-gcc-5.4.0: + ------------------------------------------------------------------------------------------------------------------------------------------------------------------- whatis("The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages. ") conflict("gcc") - prepend_path("PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin") - prepend_path("MANPATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/share/man") - prepend_path("LD_LIBRARY_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/lib") - prepend_path("LD_LIBRARY_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/lib64") - prepend_path("CMAKE_PREFIX_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/") - setenv("CC","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gcc") - setenv("CXX","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/g++") - setenv("FC","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") - setenv("F77","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") - setenv("F90","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") - setenv("GCC_ROOT","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o") + prepend_path("PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin") + prepend_path("MANPATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/share/man") + prepend_path("LD_LIBRARY_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/lib") + prepend_path("LD_LIBRARY_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/lib64") + prepend_path("CMAKE_PREFIX_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/") + setenv("CC","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gcc") + setenv("CXX","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/g++") + setenv("FC","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") + setenv("F77","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") + setenv("F90","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") + setenv("GCC_ROOT","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs") help([[The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages. ]]) @@ -875,48 +823,50 @@ This time we will be more selective and regenerate only the ``gcc`` and .. code-block:: console - root@module-file-tutorial:/# spack module tcl refresh -y gcc + $ spack module tcl refresh -y gcc ==> Regenerating tcl module files - root@module-file-tutorial:/# spack module tcl refresh -y openmpi + $ spack module tcl refresh -y openmpi ==> Regenerating tcl module files - root@module-file-tutorial:/# module show gcc - ---------------------------------------------------------------------------------------------------------------------------------------------- - /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64/gcc/7.2.0-gcc-5.4.0: - ---------------------------------------------------------------------------------------------------------------------------------------------- + $ module show gcc + ------------------------------------------------------------------------------------------------------------------------------------------------------------------- + /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64/gcc/7.2.0-gcc-5.4.0: + ------------------------------------------------------------------------------------------------------------------------------------------------------------------- whatis("The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages. ") conflict("gcc") - prepend_path("PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin") - prepend_path("MANPATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/share/man") - prepend_path("LD_LIBRARY_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/lib") - prepend_path("LD_LIBRARY_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/lib64") - prepend_path("CMAKE_PREFIX_PATH","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/") - setenv("CC","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gcc") - setenv("CXX","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/g++") - setenv("FC","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") - setenv("F77","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") - setenv("F90","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o/bin/gfortran") - setenv("GCC_ROOT","/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-wwhgyejrjfjtdsgga3hn246bc64jtr6o") + prepend_path("PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin") + prepend_path("MANPATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/share/man") + prepend_path("LD_LIBRARY_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/lib") + prepend_path("LD_LIBRARY_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/lib64") + prepend_path("CMAKE_PREFIX_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/") + setenv("CC","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gcc") + setenv("CXX","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/g++") + setenv("FC","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") + setenv("F77","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") + setenv("F90","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs/bin/gfortran") + setenv("GCC_ROOT","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs") setenv("CC","gcc") - setenv("CXX","g++") + setenv("CXX","g++'") setenv("FC","gfortran") - setenv("F90","gfortran") setenv("F77","gfortran") + setenv("F90","gfortran") help([[The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages. ]]) - root@module-file-tutorial:/# module show openmpi - ---------------------------------------------------------------------------------------------------------------------------------------------- - /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64/openmpi/1.10.2-gcc-7.2.0: - ---------------------------------------------------------------------------------------------------------------------------------------------- + $ module show openmpi + ------------------------------------------------------------------------------------------------------------------------------------------------------------------- + /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64/openmpi/3.1.3-gcc-7.2.0: + ------------------------------------------------------------------------------------------------------------------------------------------------------------------- whatis("An open source Message Passing Interface implementation. ") conflict("openmpi") - prepend_path("MANPATH","/usr/share/man") - prepend_path("ACLOCAL_PATH","/usr/share/aclocal") - prepend_path("PKG_CONFIG_PATH","/usr/lib/pkgconfig") - setenv("OPENMPI_ROOT","/usr") + prepend_path("PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/openmpi-3.1.3-do5xfer2whhk7gc26atgs3ozr3ljbvs4/bin") + prepend_path("MANPATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/openmpi-3.1.3-do5xfer2whhk7gc26atgs3ozr3ljbvs4/share/man") + prepend_path("LD_LIBRARY_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/openmpi-3.1.3-do5xfer2whhk7gc26atgs3ozr3ljbvs4/lib") + prepend_path("PKG_CONFIG_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/openmpi-3.1.3-do5xfer2whhk7gc26atgs3ozr3ljbvs4/lib/pkgconfig") + prepend_path("CMAKE_PREFIX_PATH","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/openmpi-3.1.3-do5xfer2whhk7gc26atgs3ozr3ljbvs4/") + setenv("OPENMPI_ROOT","/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/openmpi-3.1.3-do5xfer2whhk7gc26atgs3ozr3ljbvs4") setenv("SLURM_MPI_TYPE","pmi2") setenv("OMPI_MCA_btl_openib_warn_default_gid_prefix","0") help([[An open source Message Passing Interface implementation. The Open MPI @@ -994,9 +944,9 @@ Now the ``py-scipy`` module will be: .. code-block:: tcl #%Module1.0 - ## Module file created by spack (https://github.com/spack/spack) on 2018-07-10 15:15:09.308128 + ## Module file created by spack (https://github.com/spack/spack) on 2018-11-11 22:10:48.834221 ## - ## py-scipy@1.1.0%gcc@7.2.0 arch=linux-ubuntu16.04-x86_64 /fdiryak + ## py-scipy@1.1.0%gcc@7.2.0 arch=linux-ubuntu16.04-x86_64 /d5n3cph ## @@ -1008,33 +958,33 @@ Now the ``py-scipy`` module will be: puts stderr "routines for numerical integration and optimization." } - if ![ is-loaded python/2.7.15-gcc-7.2.0 ] { + if { [ module-info mode load ] && ![ is-loaded python/2.7.15-gcc-7.2.0 ] } { puts stderr "Autoloading python/2.7.15-gcc-7.2.0" module load python/2.7.15-gcc-7.2.0 } - if ![ is-loaded openblas/0.3.0-gcc-7.2.0 ] { - puts stderr "Autoloading openblas/0.3.0-gcc-7.2.0" - module load openblas/0.3.0-gcc-7.2.0 + if { [ module-info mode load ] && ![ is-loaded openblas/0.3.3-gcc-7.2.0 ] } { + puts stderr "Autoloading openblas/0.3.3-gcc-7.2.0" + module load openblas/0.3.3-gcc-7.2.0 } - if ![ is-loaded py-numpy/1.14.3-gcc-7.2.0-openblas ] { - puts stderr "Autoloading py-numpy/1.14.3-gcc-7.2.0-openblas" - module load py-numpy/1.14.3-gcc-7.2.0-openblas + if { [ module-info mode load ] && ![ is-loaded py-numpy/1.15.2-gcc-7.2.0-openblas ] } { + puts stderr "Autoloading py-numpy/1.15.2-gcc-7.2.0-openblas" + module load py-numpy/1.15.2-gcc-7.2.0-openblas } conflict py-scipy - prepend-path LD_LIBRARY_PATH "/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/py-scipy-1.1.0-fdiryak4ywv2krvqo7uzogfcc6uckkdp/lib" - prepend-path CMAKE_PREFIX_PATH "/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/py-scipy-1.1.0-fdiryak4ywv2krvqo7uzogfcc6uckkdp/" - prepend-path PYTHONPATH "/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/py-scipy-1.1.0-fdiryak4ywv2krvqo7uzogfcc6uckkdp/lib/python2.7/site-packages" - setenv PY_SCIPY_ROOT "/usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/py-scipy-1.1.0-fdiryak4ywv2krvqo7uzogfcc6uckkdp" + prepend-path LD_LIBRARY_PATH "/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/py-scipy-1.1.0-d5n3cphk2lx2v74ypwb6h7tna7vvgdyn/lib" + prepend-path CMAKE_PREFIX_PATH "/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/py-scipy-1.1.0-d5n3cphk2lx2v74ypwb6h7tna7vvgdyn/" + prepend-path PYTHONPATH "/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/py-scipy-1.1.0-d5n3cphk2lx2v74ypwb6h7tna7vvgdyn/lib/python2.7/site-packages" + setenv PY_SCIPY_ROOT "/home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-7.2.0/py-scipy-1.1.0-d5n3cphk2lx2v74ypwb6h7tna7vvgdyn" and will contain code to autoload all the dependencies: .. code-block:: console - root@module-file-tutorial:/# module load py-scipy + $ module load py-scipy Autoloading python/2.7.15-gcc-7.2.0 - Autoloading openblas/0.3.0-gcc-7.2.0 - Autoloading py-numpy/1.14.3-gcc-7.2.0-openblas + Autoloading openblas/0.3.3-gcc-7.2.0 + Autoloading py-numpy/1.15.2-gcc-7.2.0-openblas In case messages are unwanted during the autoload procedure, it will be sufficient to omit the line setting ``verbose: True`` in the configuration file above. @@ -1050,20 +1000,22 @@ all the software is visible at the same time: .. code-block:: console - root@module-file-tutorial:/# module avail - - -------------------------------------------- /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64 --------------------------------------------- - bzip2/1.0.6-gcc-7.2.0 openblas/0.3.0-gcc-7.2.0 (L) - cmake/3.11.4-gcc-7.2.0 openmpi/1.10.2-gcc-7.2.0 - gcc/7.2.0-gcc-5.4.0 openssl/1.0.2o-gcc-7.2.0 - gdbm/1.14.1-gcc-7.2.0 pkgconf/1.4.2-gcc-7.2.0 - mpich/3.2.1-gcc-7.2.0 py-numpy/1.14.3-gcc-7.2.0-openblas (L) - ncurses/6.1-gcc-7.2.0 py-scipy/1.1.0-gcc-7.2.0-openblas (L) - netlib-lapack/3.8.0-gcc-7.2.0 py-setuptools/39.2.0-gcc-7.2.0 - netlib-scalapack/2.0.2-gcc-7.2.0-netlib-mpich python/2.7.15-gcc-7.2.0 (L) - netlib-scalapack/2.0.2-gcc-7.2.0-netlib-openmpi readline/7.0-gcc-7.2.0 - netlib-scalapack/2.0.2-gcc-7.2.0-openblas-mpich sqlite/3.23.1-gcc-7.2.0 - netlib-scalapack/2.0.2-gcc-7.2.0-openblas-openmpi (D) zlib/1.2.11-gcc-7.2.0 + $ module avail + + ----------------------------------------------- /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64 ----------------------------------------------- + autoconf/2.69-gcc-7.2.0 m4/1.4.18-gcc-7.2.0 pkgconf/1.4.2-gcc-7.2.0 + automake/1.16.1-gcc-7.2.0 mpich/3.2.1-gcc-7.2.0 py-numpy/1.15.2-gcc-7.2.0-openblas (L) + bzip2/1.0.6-gcc-7.2.0 ncurses/6.1-gcc-7.2.0 py-scipy/1.1.0-gcc-7.2.0-openblas (L) + cmake/3.12.3-gcc-7.2.0 netlib-lapack/3.8.0-gcc-7.2.0 py-setuptools/40.4.3-gcc-7.2.0 + diffutils/3.6-gcc-7.2.0 netlib-scalapack/2.0.2-gcc-7.2.0-netlib-mpich python/2.7.15-gcc-7.2.0 (L) + findutils/4.6.0-gcc-7.2.0 netlib-scalapack/2.0.2-gcc-7.2.0-netlib-openmpi readline/7.0-gcc-7.2.0 + gcc/7.2.0-gcc-5.4.0 netlib-scalapack/2.0.2-gcc-7.2.0-openblas-mpich sqlite/3.23.1-gcc-7.2.0 + gdbm/1.14.1-gcc-7.2.0 netlib-scalapack/2.0.2-gcc-7.2.0-openblas-openmpi (D) texinfo/6.5-gcc-7.2.0 + hwloc/1.11.9-gcc-7.2.0 numactl/2.0.11-gcc-7.2.0 util-macros/1.19.1-gcc-7.2.0 + libpciaccess/0.13.5-gcc-7.2.0 openblas/0.3.3-gcc-7.2.0 (L) xz/5.2.4-gcc-7.2.0 + libsigsegv/2.11-gcc-7.2.0 openmpi/3.1.3-gcc-7.2.0 zlib/1.2.11-gcc-7.2.0 + libtool/2.4.6-gcc-7.2.0 openssl/1.0.2o-gcc-7.2.0 + libxml2/2.9.8-gcc-7.2.0 perl/5.26.2-gcc-7.2.0 Where: L: Module is loaded @@ -1077,12 +1029,12 @@ that nothing prevents users from loading incompatible sets of modules: .. code-block:: console - root@module-file-tutorial:/# module purge - root@module-file-tutorial:/# module load netlib-lapack/3.8.0-gcc-7.2.0 openblas/0.3.0-gcc-7.2.0 - root@module-file-tutorial:/# module list + $ module purge + $ module load netlib-lapack/3.8.0-gcc-7.2.0 openblas/0.3.3-gcc-7.2.0 + $ module list Currently Loaded Modules: - 1) netlib-lapack/3.8.0-gcc-7.2.0 2) openblas/0.3.0-gcc-7.2.0 + 1) netlib-lapack/3.8.0-gcc-7.2.0 2) openblas/0.3.3-gcc-7.2.0 Even if ``conflicts`` directives are carefully placed in module files, they: @@ -1170,24 +1122,24 @@ If we now regenerate the module files: .. code-block:: console - root@module-file-tutorial:/# spack module lmod refresh --delete-tree -y + $ spack module lmod refresh --delete-tree -y ==> Regenerating lmod module files and update ``MODULEPATH`` to point to the ``Core``: .. code-block:: console - root@module-file-tutorial:/# module purge - root@module-file-tutorial:/# module unuse /usr/local/share/spack/modules/linux-ubuntu16.04-x86_64 - root@module-file-tutorial:/# module use /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/Core + $ module purge + $ module unuse /home/spack1/spack/share/spack/modules/linux-ubuntu16.04-x86_64 + $ module use /home/spack1/spack/share/spack/lmod/linux-ubuntu16.04-x86_64/Core asking for the available modules will return: .. code-block:: console - root@module-file-tutorial:/# module avail + $ module avail - ------------------------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/Core -------------------------------------------- + ----------------------------------------------------------- share/spack/lmod/linux-ubuntu16.04-x86_64/Core ------------------------------------------------------------ gcc/7.2.0 Use "module spider" to find all possible modules. @@ -1198,15 +1150,17 @@ the ``Compiler`` part of the hierarchy: .. code-block:: console - root@module-file-tutorial:/# module load gcc - root@module-file-tutorial:/# module avail + $ module load gcc + $ module avail - ----------------------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/gcc/7.2.0 ----------------------------------------- - bzip2/1.0.6 mpich/3.2.1 openblas/0.3.0 pkgconf/1.4.2 py-setuptools/39.2.0 sqlite/3.23.1 - cmake/3.12.0 ncurses/6.1 openmpi/1.10.2 py-numpy/1.14.3-openblas python/2.7.15 zlib/1.2.11 - gdbm/1.14.1 netlib-lapack/3.8.0 openssl/1.0.2o py-scipy/1.1.0-openblas readline/7.0 + ------------------------------------------- /home/spack1/spack/share/spack/lmod/linux-ubuntu16.04-x86_64/gcc/7.2.0 -------------------------------------------- + autoconf/2.69 findutils/4.6.0 libtool/2.4.6 netlib-lapack/3.8.0 perl/5.26.2 python/2.7.15 xz/5.2.4 + automake/1.16.1 gdbm/1.14.1 libxml2/2.9.8 numactl/2.0.11 pkgconf/1.4.2 readline/7.0 zlib/1.2.11 + bzip2/1.0.6 hwloc/1.11.9 m4/1.4.18 openblas/0.3.3 py-numpy/1.15.2-openblas sqlite/3.23.1 + cmake/3.12.3 libpciaccess/0.13.5 mpich/3.2.1 openmpi/3.1.3 py-scipy/1.1.0-openblas texinfo/6.5 + diffutils/3.6 libsigsegv/2.11 ncurses/6.1 openssl/1.0.2o py-setuptools/40.4.3 util-macros/1.19.1 - ------------------------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/Core -------------------------------------------- + ----------------------------------------------------------- share/spack/lmod/linux-ubuntu16.04-x86_64/Core ------------------------------------------------------------ gcc/7.2.0 (L) Where: @@ -1220,18 +1174,20 @@ either ``mpich`` or ``openmpi``. Let's start by loading ``mpich``: .. code-block:: console - root@module-file-tutorial:/# module load mpich - root@module-file-tutorial:/# module avail + $ module load mpich + $ module avail - ------------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/mpich/3.2.1-vt5xcat/gcc/7.2.0 ------------------------------- + --------------------------------- /home/spack1/spack/share/spack/lmod/linux-ubuntu16.04-x86_64/mpich/3.2.1-vt5xcat/gcc/7.2.0 ---------------------------------- netlib-scalapack/2.0.2-netlib netlib-scalapack/2.0.2-openblas (D) - ----------------------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/gcc/7.2.0 ----------------------------------------- - bzip2/1.0.6 mpich/3.2.1 (L) openblas/0.3.0 pkgconf/1.4.2 py-setuptools/39.2.0 sqlite/3.23.1 - cmake/3.12.0 ncurses/6.1 openmpi/1.10.2 py-numpy/1.14.3-openblas python/2.7.15 zlib/1.2.11 - gdbm/1.14.1 netlib-lapack/3.8.0 openssl/1.0.2o py-scipy/1.1.0-openblas readline/7.0 + ------------------------------------------- /home/spack1/spack/share/spack/lmod/linux-ubuntu16.04-x86_64/gcc/7.2.0 -------------------------------------------- + autoconf/2.69 findutils/4.6.0 libtool/2.4.6 netlib-lapack/3.8.0 perl/5.26.2 python/2.7.15 xz/5.2.4 + automake/1.16.1 gdbm/1.14.1 libxml2/2.9.8 numactl/2.0.11 pkgconf/1.4.2 readline/7.0 zlib/1.2.11 + bzip2/1.0.6 hwloc/1.11.9 m4/1.4.18 openblas/0.3.3 py-numpy/1.15.2-openblas sqlite/3.23.1 + cmake/3.12.3 libpciaccess/0.13.5 mpich/3.2.1 (L) openmpi/3.1.3 py-scipy/1.1.0-openblas texinfo/6.5 + diffutils/3.6 libsigsegv/2.11 ncurses/6.1 openssl/1.0.2o py-setuptools/40.4.3 util-macros/1.19.1 - ------------------------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/Core -------------------------------------------- + ----------------------------------------------------------- share/spack/lmod/linux-ubuntu16.04-x86_64/Core ------------------------------------------------------------ gcc/7.2.0 (L) Where: @@ -1246,16 +1202,17 @@ either ``mpich`` or ``openmpi``. Let's start by loading ``mpich``: root@module-file-tutorial:/# module list Currently Loaded Modules: - 1) gcc/7.2.0 2) mpich/3.2.1 3) openblas/0.3.0 4) netlib-scalapack/2.0.2-openblas + 1) gcc/7.2.0 2) mpich/3.2.1 3) openblas/0.3.3 4) netlib-scalapack/2.0.2-openblas At this point we can showcase the improved consistency that a hierarchical layout provides over a non-hierarchical one: .. code-block:: console - root@module-file-tutorial:/# module load openmpi + $ module load openmpi + + Lmod is automatically replacing "mpich/3.2.1" with "openmpi/3.1.3". - Lmod is automatically replacing "mpich/3.2.1" with "openmpi/1.10.2". Due to MODULEPATH changes, the following have been reloaded: 1) netlib-scalapack/2.0.2-openblas @@ -1284,7 +1241,7 @@ for ``LAPACK`` implementations: root@module-file-tutorial:/# module list Currently Loaded Modules: - 1) gcc/7.2.0 2) openblas/0.3.0 3) openmpi/1.10.2 4) netlib-scalapack/2.0.2-openblas + 1) gcc/7.2.0 2) openblas/0.3.3 3) openmpi/3.1.3 4) netlib-scalapack/2.0.2-openblas root@module-file-tutorial:/# module load netlib-scalapack/2.0.2-netlib @@ -1294,7 +1251,7 @@ for ``LAPACK`` implementations: root@module-file-tutorial:/# module list Currently Loaded Modules: - 1) gcc/7.2.0 2) openblas/0.3.0 3) openmpi/1.10.2 4) netlib-scalapack/2.0.2-netlib + 1) gcc/7.2.0 2) openblas/0.3.3 3) openmpi/3.1.3 4) netlib-scalapack/2.0.2-netlib Hierarchies that are deeper than ``Core``/``Compiler``/``MPI`` are probably still considered "unusual" or "impractical" at many sites, mainly because @@ -1369,19 +1326,21 @@ we can see that now we have additional components in the hierarchy: .. code-block:: console - root@module-file-tutorial:/# module load gcc - root@module-file-tutorial:/# module load openblas - root@module-file-tutorial:/# module avail + $ module load gcc + $ module load openblas + $ module avail - ----------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/openblas/0.3.0-pdatzbi/gcc/7.2.0 ------------------------------ - py-numpy/1.14.3 py-scipy/1.1.0 + -------------------------------- /home/spack1/spack/share/spack/lmod/linux-ubuntu16.04-x86_64/openblas/0.3.3-xxoxfh4/gcc/7.2.0 -------------------------------- + py-numpy/1.15.2 py-scipy/1.1.0 - ----------------------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/gcc/7.2.0 ----------------------------------------- - bzip2/1.0.6 mpich/3.2.1 openblas/0.3.0 (L) pkgconf/1.4.2 readline/7.0 - cmake/3.12.0 ncurses/6.1 openmpi/1.10.2 py-setuptools/39.2.0 sqlite/3.23.1 - gdbm/1.14.1 netlib-lapack/3.8.0 openssl/1.0.2o python/2.7.15 zlib/1.2.11 + ------------------------------------------- /home/spack1/spack/share/spack/lmod/linux-ubuntu16.04-x86_64/gcc/7.2.0 -------------------------------------------- + autoconf/2.69 findutils/4.6.0 libtool/2.4.6 netlib-lapack/3.8.0 perl/5.26.2 sqlite/3.23.1 + automake/1.16.1 gdbm/1.14.1 libxml2/2.9.8 numactl/2.0.11 pkgconf/1.4.2 texinfo/6.5 + bzip2/1.0.6 hwloc/1.11.9 m4/1.4.18 openblas/0.3.3 (L) py-setuptools/40.4.3 util-macros/1.19.1 + cmake/3.12.3 libpciaccess/0.13.5 mpich/3.2.1 openmpi/3.1.3 python/2.7.15 xz/5.2.4 + diffutils/3.6 libsigsegv/2.11 ncurses/6.1 openssl/1.0.2o readline/7.0 zlib/1.2.11 - ------------------------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/Core -------------------------------------------- + ----------------------------------------------------------- share/spack/lmod/linux-ubuntu16.04-x86_64/Core ------------------------------------------------------------ gcc/7.2.0 (L) Where: @@ -1391,21 +1350,23 @@ we can see that now we have additional components in the hierarchy: Use "module keyword key1 key2 ..." to search for all possible modules matching any of the "keys". - root@module-file-tutorial:/# module load openmpi - root@module-file-tutorial:/# module avail + $ module load openmpi + $ module avail - ------------------ /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/openmpi/1.10.2-6oewzwj/openblas/0.3.0-pdatzbi/gcc/7.2.0 ------------------ + --------------------- /home/spack1/spack/share/spack/lmod/linux-ubuntu16.04-x86_64/openmpi/3.1.3-do5xfer/openblas/0.3.3-xxoxfh4/gcc/7.2.0 --------------------- netlib-scalapack/2.0.2 - ----------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/openblas/0.3.0-pdatzbi/gcc/7.2.0 ------------------------------ - py-numpy/1.14.3 py-scipy/1.1.0 + -------------------------------- /home/spack1/spack/share/spack/lmod/linux-ubuntu16.04-x86_64/openblas/0.3.3-xxoxfh4/gcc/7.2.0 -------------------------------- + py-numpy/1.15.2 py-scipy/1.1.0 - ----------------------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/gcc/7.2.0 ----------------------------------------- - bzip2/1.0.6 mpich/3.2.1 openblas/0.3.0 (L) pkgconf/1.4.2 readline/7.0 - cmake/3.11.4 ncurses/6.1 openmpi/1.10.2 (L) py-setuptools/39.2.0 sqlite/3.23.1 - gdbm/1.14.1 netlib-lapack/3.8.0 openssl/1.0.2o python/2.7.15 zlib/1.2.11 + ------------------------------------------- /home/spack1/spack/share/spack/lmod/linux-ubuntu16.04-x86_64/gcc/7.2.0 -------------------------------------------- + autoconf/2.69 findutils/4.6.0 libtool/2.4.6 netlib-lapack/3.8.0 perl/5.26.2 sqlite/3.23.1 + automake/1.16.1 gdbm/1.14.1 libxml2/2.9.8 numactl/2.0.11 pkgconf/1.4.2 texinfo/6.5 + bzip2/1.0.6 hwloc/1.11.9 m4/1.4.18 openblas/0.3.3 (L) py-setuptools/40.4.3 util-macros/1.19.1 + cmake/3.12.3 libpciaccess/0.13.5 mpich/3.2.1 openmpi/3.1.3 (L) python/2.7.15 xz/5.2.4 + diffutils/3.6 libsigsegv/2.11 ncurses/6.1 openssl/1.0.2o readline/7.0 zlib/1.2.11 - ------------------------------------------- /usr/local/share/spack/lmod/linux-ubuntu16.04-x86_64/Core -------------------------------------------- + ---------------------------------------------- /home/spack1/spack/share/spack/lmod/linux-ubuntu16.04-x86_64/Core ---------------------------------------------- gcc/7.2.0 (L) Where: @@ -1418,19 +1379,22 @@ Both ``MPI`` and ``LAPACK`` providers will now benefit from the same safety feat .. code-block:: console - root@module-file-tutorial:/# module load py-numpy netlib-scalapack - root@module-file-tutorial:/# module load mpich + $ module load py-numpy netlib-scalapack + $ module load mpich - Lmod is automatically replacing "openmpi/1.10.2" with "mpich/3.2.1". + Lmod is automatically replacing "openmpi/3.1.3" with "mpich/3.2.1". Due to MODULEPATH changes, the following have been reloaded: 1) netlib-scalapack/2.0.2 - root@module-file-tutorial:/# module load mpich + $ module load netlib-lapack + + Lmod is automatically replacing "openblas/0.3.3" with "netlib-lapack/3.8.0". - Lmod is automatically replacing "openmpi/1.10.2" with "mpich/3.2.1". + Inactive Modules: + 1) py-numpy Due to MODULEPATH changes, the following have been reloaded: 1) netlib-scalapack/2.0.2 diff --git a/lib/spack/docs/tutorial_packaging.rst b/lib/spack/docs/tutorial_packaging.rst index b6b4ee6cf7..328c36b61f 100644 --- a/lib/spack/docs/tutorial_packaging.rst +++ b/lib/spack/docs/tutorial_packaging.rst @@ -48,6 +48,16 @@ A few things before we get started: Creating the Package File ------------------------- +We will use a separate package repository for the tutorial. Package +repositories allow you to separate sets of packages that take +precedence over one another. We will use the tutorial repo that ships +with Spack to avoid breaking the builtin Spack packages. + +.. code-block:: console + + $ spack repo add $SPACK_ROOT/var/spack/repos/tutorial/ + ==> Added repo with namespace 'tutorial'. + Spack comes with a handy command to create a new package: ``spack create``. This command is given the location of a package's source code, downloads @@ -70,7 +80,7 @@ we run ``spack create`` on it: ==> Checksummed 1 version of mpileaks ==> Using specified package template: 'generic' ==> Created template for mpileaks package - ==> Created package file: $SPACK_ROOT/var/spack/repos/builtin/packages/mpileaks/package.py + ==> Created package file: /home/spack1/spack/var/spack/repos/builtin/packages/mpileaks/package.py And Spack should spawn a text editor with this file: @@ -78,7 +88,7 @@ And Spack should spawn a text editor with this file: :language: python Spack has created this file in -``$SPACK_ROOT/var/spack/repos/builtin/packages/mpileaks/package.py``. Take a +``/home/spack1/spack/var/spack/repos/builtin/packages/mpileaks/package.py``. Take a moment to look over the file. There's a few placeholders that Spack has created, which we'll fill in as part of this tutorial: @@ -93,26 +103,27 @@ to build this package: .. code-block:: console $ spack install mpileaks - ==> Installing mpileaks - ==> Using cached archive: /usr/workspace/wsa/legendre/spack/var/spack/cache/mpileaks/mpileaks-1.0.tar.gz - ==> Staging archive: /usr/workspace/wsa/legendre/spack/var/spack/stage/mpileaks-1.0-hufwhwpq5benv3sslie6ryflk5s6nm35/mpileaks-1.0.tar.gz - ==> Created stage in /usr/workspace/wsa/legendre/spack/var/spack/stage/mpileaks-1.0-hufwhwpq5benv3sslie6ryflk5s6nm35 - ==> Ran patch() for mpileaks - ==> Building mpileaks [AutotoolsPackage] - ==> Executing phase : 'autoreconf' - ==> Executing phase : 'configure' - ==> Error: ProcessError: Command exited with status 1: - './configure' '--prefix=/usr/workspace/wsa/legendre/spack/opt/spack/linux-rhel7-x86_64/gcc-4.9.3/mpileaks-1.0-hufwhwpq5benv3sslie6ryflk5s6nm35' - /usr/workspace/wsa/legendre/spack/lib/spack/spack/build_systems/autotools.py:150, in configure: - 145 def configure(self, spec, prefix): - 146 """Runs configure with the arguments specified in `configure_args` - 147 and an appropriately set prefix - 148 """ - 149 options = ['--prefix={0}'.format(prefix)] + self.configure_args() - >> 150 inspect.getmodule(self).configure(*options) + ==> No binary for mpileaks found: installing from source + ==> Fetching file:///mirror/mpileaks/mpileaks-1.0.tar.gz + curl: (37) Couldn't open file /mirror/mpileaks/mpileaks-1.0.tar.gz + ==> Fetching from file:///mirror/mpileaks/mpileaks-1.0.tar.gz failed. + ==> Fetching https://github.com/hpc/mpileaks/releases/download/v1.0/mpileaks-1.0.tar.gz + ######################################################################## 100.0% + ==> Staging archive: /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-sv75n3u5ev6mljwcezisz3slooozbbxu/mpileaks-1.0.tar.gz + ==> Created stage in /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-sv75n3u5ev6mljwcezisz3slooozbbxu + ==> No patches needed for mpileaks + ==> Building mpileaks [Package] + ==> Executing phase: 'install' + ==> Error: ProcessError: Command exited with status 2: + 'make' '-j16' + + 1 error found in build log: + 1 ==> Executing phase: 'install' + 2 ==> 'make' '-j16' + >> 3 make: *** No targets specified and no makefile found. Stop. See build log for details: - /tmp/legendre/spack-stage/spack-stage-8HVzqu/mpileaks-1.0/spack-build.out + /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-sv75n3u5ev6mljwcezisz3slooozbbxu/mpileaks-1.0/spack-build.out This obviously didn't work; we need to fill in the package-specific information. Specifically, Spack didn't try to build any of mpileaks' @@ -148,8 +159,19 @@ allow Spack to provide some documentation on this package to other users: .. code-block:: console $ spack info mpileaks - AutotoolsPackage: mpileaks - Homepage: https://github.com/hpc/mpileaks + Package: mpileaks + + Description: + Tool to detect and report MPI objects like MPI_Requests and + MPI_Datatypes. + + Homepage: https://github.com/hpc/mpileaks + + Tags: + None + + Preferred version: + 1.0 https://github.com/hpc/mpileaks/releases/download/v1.0/mpileaks-1.0.tar.gz Safe versions: 1.0 https://github.com/hpc/mpileaks/releases/download/v1.0/mpileaks-1.0.tar.gz @@ -158,7 +180,7 @@ allow Spack to provide some documentation on this package to other users: None Installation Phases: - autoreconf configure build install + install Build Dependencies: None @@ -172,10 +194,6 @@ allow Spack to provide some documentation on this package to other users: Virtual Packages: None - Description: - Tool to detect and report MPI objects like MPI_Requests and - MPI_Datatypes - As we fill in more information about this package the ``spack info`` command will become more informative. Now let's start making this package build. @@ -206,25 +224,39 @@ Now when we try to install this package a lot more happens: $ spack install mpileaks ... - ==> libdwarf is already installed in SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libdwarf-20160507-er4jrjynul6uba7wiu5tasuj35roxw6m - ==> dyninst is already installed in SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/dyninst-9.3.2-t7mau34jv3e76mpspdzhf2p2a6k7qubg - ==> callpath is already installed in SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/callpath-1.0.4-ikbbkvfmsfmqzo624nvvrbooovf7egoc + ==> Successfully installed libdwarf from binary cache + [+] /home/ubuntu/packaging/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/libdwarf-20180129-p4jeflorwlnkoq2vpuyocwrbcht2ayak + ==> Installing callpath + ==> Searching for binary cache of callpath + ==> Installing callpath from binary cache + ==> Fetching file:///mirror/build_cache/linux-ubuntu16.04-x86_64/gcc-5.4.0/callpath-1.0.4/linux-ubuntu16.04-x86_64-gcc-5.4.0-callpath-1.0.4-empvyxdkc4j4pwg7gznwhbiumruey66x.spack + ######################################################################## 100.0% + gpg: Signature made Sat 10 Nov 2018 05:30:21 AM UTC using RSA key ID 3B7C69B2 + gpg: Good signature from "sc-tutorial (GPG created for Spack) <becker33@llnl.gov>" [unknown] + gpg: WARNING: This key is not certified with a trusted signature! + gpg: There is no indication that the signature belongs to the owner. + Primary key fingerprint: 95C7 1787 7AC0 0FFD AA8F D6E9 9CFA 4A45 3B7C 69B2 + ==> Successfully installed callpath from binary cache + [+] /home/ubuntu/packaging/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/callpath-1.0.4-empvyxdkc4j4pwg7gznwhbiumruey66x ==> Installing mpileaks - ==> Using cached archive: SPACK_ROOT/var/spack/cache/mpileaks/mpileaks-1.0.tar.gz - ==> Already staged mpileaks-1.0-lfgf53rns5mswq25rxckzgvmjc6ywam7 in SPACK_ROOT/var/spack/stage/mpileaks-1.0-lfgf53rns5mswq25rxckzgvmjc6ywam7 + ==> Searching for binary cache of mpileaks + ==> No binary for mpileaks found: installing from source + ==> Using cached archive: /home/ubuntu/packaging/spack/var/spack/cache/mpileaks/mpileaks-1.0.tar.gz + ==> Staging archive: /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-csoikctsalli4cdkkdk377gprkc472rb/mpileaks-1.0.tar.gz + ==> Created stage in /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-csoikctsalli4cdkkdk377gprkc472rb ==> No patches needed for mpileaks ==> Building mpileaks [Package] ==> Executing phase: 'install' ==> Error: ProcessError: Command exited with status 2: - 'make' '-j36' + 'make' '-j16' 1 error found in build log: - 1 ==> Executing phase: 'install' - 2 ==> 'make' '-j36' - >> 3 make: *** No targets specified and no makefile found. Stop. + 1 ==> Executing phase: 'install' + 2 ==> 'make' '-j16' + >> 3 make: *** No targets specified and no makefile found. Stop. See build log for details: - SPACK_ROOT/var/spack/stage/mpileaks-1.0-lfgf53rns5mswq25rxckzgvmjc6ywam7/mpileaks-1.0/spack-build.out + /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-csoikctsalli4cdkkdk377gprkc472rb/mpileaks-1.0/spack-build.out Note that this command may take a while to run and produce more output if you don't have an MPI already installed or configured in Spack. @@ -251,9 +283,15 @@ If we re-run we still get errors: .. code-block:: console + $ spack install mpileask + ... ==> Installing mpileaks - ==> Using cached archive: SPACK_ROOT/var/spack/cache/mpileaks/mpileaks-1.0.tar.gz - ==> Already staged mpileaks-1.0-lfgf53rns5mswq25rxckzgvmjc6ywam7 in SPACK_ROOT/var/spack/stage/mpileaks-1.0-lfgf53rns5mswq25rxckzgvmjc6ywam7 + ==> Searching for binary cache of mpileaks + ==> Finding buildcaches in /mirror/build_cache + ==> No binary for mpileaks found: installing from source + ==> Using cached archive: /home/ubuntu/packaging/spack/var/spack/cache/mpileaks/mpileaks-1.0.tar.gz + ==> Staging archive: /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-csoikctsalli4cdkkdk377gprkc472rb/mpileaks-1.0.tar.gz + ==> Created stage in /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-csoikctsalli4cdkkdk377gprkc472rb ==> No patches needed for mpileaks ==> Building mpileaks [Package] ==> Executing phase: 'install' @@ -261,17 +299,27 @@ If we re-run we still get errors: './configure' 1 error found in build log: - [ ... ] - 21 checking whether SPACK_ROOT/lib/spack/env/gcc/gcc and cc understand -c and -o together... yes - 22 checking whether we are using the GNU C++ compiler... yes - 23 checking whether SPACK_ROOT/lib/spack/env/gcc/g++ accepts -g... yes - 24 checking dependency style of SPACK_ROOT/lib/spack/env/gcc/g++... gcc3 - 25 checking for SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc... SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc - 26 Checking whether SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc responds to '-showme:compile'... yes - >> 27 configure: error: unable to locate adept-utils installation + 25 checking for /home/ubuntu/packaging/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc- + 5.4.0/openmpi-3.1.3-3njc4q5pqdpptq6jvqjrezkffwokv2sx/bin/mpicc... /home/ubuntu/pa + ckaging/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.1.3-3njc4q5p + qdpptq6jvqjrezkffwokv2sx/bin/mpicc + 26 Checking whether /home/ubuntu/packaging/spack/opt/spack/linux-ubuntu16.04-x86_64/ + gcc-5.4.0/openmpi-3.1.3-3njc4q5pqdpptq6jvqjrezkffwokv2sx/bin/mpicc responds to '- + showme:compile'... no + 27 Checking whether /home/ubuntu/packaging/spack/opt/spack/linux-ubuntu16.04-x86_64/ + gcc-5.4.0/openmpi-3.1.3-3njc4q5pqdpptq6jvqjrezkffwokv2sx/bin/mpicc responds to '- + showme'... no + 28 Checking whether /home/ubuntu/packaging/spack/opt/spack/linux-ubuntu16.04-x86_64/ + gcc-5.4.0/openmpi-3.1.3-3njc4q5pqdpptq6jvqjrezkffwokv2sx/bin/mpicc responds to '- + compile-info'... no + 29 Checking whether /home/ubuntu/packaging/spack/opt/spack/linux-ubuntu16.04-x86_64/ + gcc-5.4.0/openmpi-3.1.3-3njc4q5pqdpptq6jvqjrezkffwokv2sx/bin/mpicc responds to '- + show'... no + 30 ./configure: line 4809: Echo: command not found + >> 31 configure: error: unable to locate adept-utils installation See build log for details: - SPACK_ROOT/var/spack/stage/mpileaks-1.0-lfgf53rns5mswq25rxckzgvmjc6ywam7/mpileaks-1.0/spack-build.out + /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-csoikctsalli4cdkkdk377gprkc472rb/mpileaks-1.0/spack-build.out Again, the problem may be obvious. But let's pretend we're not all intelligent developers and use this opportunity spend some @@ -291,23 +339,23 @@ As per the error message, Spack has given us a ``spack-build.out`` debug log: checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes - checking for gcc... SPACK_ROOT/lib/spack/env/gcc/gcc + checking for gcc... /home/spack1/spack/lib/spack/env/gcc/gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes - checking whether SPACK_ROOT/lib/spack/env/gcc/gcc accepts -g... yes - checking for SPACK_ROOT/lib/spack/env/gcc/gcc option to accept ISO C89... none needed + checking whether /home/spack1/spack/lib/spack/env/gcc/gcc accepts -g... yes + checking for /home/spack1/spack/lib/spack/env/gcc/gcc option to accept ISO C89... none needed checking for style of include used by make... GNU - checking dependency style of SPACK_ROOT/lib/spack/env/gcc/gcc... gcc3 - checking whether SPACK_ROOT/lib/spack/env/gcc/gcc and cc understand -c and -o together... yes + checking dependency style of /home/spack1/spack/lib/spack/env/gcc/gcc... gcc3 + checking whether /home/spack1/spack/lib/spack/env/gcc/gcc and cc understand -c and -o together... yes checking whether we are using the GNU C++ compiler... yes - checking whether SPACK_ROOT/lib/spack/env/gcc/g++ accepts -g... yes - checking dependency style of SPACK_ROOT/lib/spack/env/gcc/g++... gcc3 - checking for SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc... SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc - Checking whether SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc responds to '-showme:compile'... yes + checking whether /home/spack1/spack/lib/spack/env/gcc/g++ accepts -g... yes + checking dependency style of /home/spack1/spack/lib/spack/env/gcc/g++... gcc3 + checking for /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc... /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc + Checking whether /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc responds to '-showme:compile'... yes configure: error: unable to locate adept-utils installation This gives us the output from the build, and mpileaks isn't @@ -322,7 +370,7 @@ We can also enter the build area and try to manually run the build: .. code-block:: console - $ spack env mpileaks bash + $ spack build-env mpileaks bash $ spack cd mpileaks The ``spack env`` command spawned a new shell that contains the same @@ -341,23 +389,23 @@ From here we can manually re-run the build: checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes - checking for gcc... SPACK_ROOT/lib/spack/env/gcc/gcc + checking for gcc... /home/spack1/spack/lib/spack/env/gcc/gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes - checking whether SPACK_ROOT/lib/spack/env/gcc/gcc accepts -g... yes - checking for SPACK_ROOT/lib/spack/env/gcc/gcc option to accept ISO C89... none needed + checking whether /home/spack1/spack/lib/spack/env/gcc/gcc accepts -g... yes + checking for /home/spack1/spack/lib/spack/env/gcc/gcc option to accept ISO C89... none needed checking for style of include used by make... GNU - checking dependency style of SPACK_ROOT/lib/spack/env/gcc/gcc... gcc3 - checking whether SPACK_ROOT/lib/spack/env/gcc/gcc and cc understand -c and -o together... yes + checking dependency style of /home/spack1/spack/lib/spack/env/gcc/gcc... gcc3 + checking whether /home/spack1/spack/lib/spack/env/gcc/gcc and cc understand -c and -o together... yes checking whether we are using the GNU C++ compiler... yes - checking whether SPACK_ROOT/lib/spack/env/gcc/g++ accepts -g... yes - checking dependency style of SPACK_ROOT/lib/spack/env/gcc/g++... gcc3 - checking for SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc... SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc - Checking whether SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc responds to '-showme:compile'... yes + checking whether /home/spack1/spack/lib/spack/env/gcc/g++ accepts -g... yes + checking dependency style of /home/spack1/spack/lib/spack/env/gcc/g++... gcc3 + checking for /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc... /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc + Checking whether /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/openmpi-3.0.0-yo5qkfvumpmgmvlbalqcadu46j5bd52f/bin/mpicc responds to '-showme:compile'... yes configure: error: unable to locate adept-utils installation We're seeing the same error, but now we're in a shell where we can run @@ -387,16 +435,18 @@ This is all we need for working mpileaks! If we install now we'll see: $ spack install mpileaks ... ==> Installing mpileaks - ==> Using cached archive: SPACK_ROOT/var/spack/cache/mpileaks/mpileaks-1.0.tar.gz - ==> Staging archive: SPACK_ROOT/var/spack/stage/mpileaks-1.0-lfgf53rns5mswq25rxckzgvmjc6ywam7/mpileaks-1.0.tar.gz - ==> Created stage in SPACK_ROOT/var/spack/stage/mpileaks-1.0-lfgf53rns5mswq25rxckzgvmjc6ywam7 + ==> Searching for binary cache of mpileaks + ==> Finding buildcaches in /mirror/build_cache + ==> No binary for mpileaks found: installing from source + ==> Using cached archive: /home/ubuntu/packaging/spack/var/spack/cache/mpileaks/mpileaks-1.0.tar.gz + ==> Staging archive: /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-csoikctsalli4cdkkdk377gprkc472rb/mpileaks-1.0.tar.gz + ==> Created stage in /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-csoikctsalli4cdkkdk377gprkc472rb ==> No patches needed for mpileaks ==> Building mpileaks [Package] ==> Executing phase: 'install' ==> Successfully installed mpileaks - Fetch: 0.00s. Build: 9.01s. Total: 9.01s. - [+] SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpileaks-1.0-lfgf53rns5mswq25rxckzgvmjc6ywam7 - + Fetch: 0.00s. Build: 9.41s. Total: 9.41s. + [+] /home/ubuntu/packaging/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpileaks-1.0-csoikctsalli4cdkkdk377gprkc472rb There are some special circumstances in package that are worth highlighting. Normally spack would have automatically detected that mpileaks was an @@ -413,7 +463,7 @@ a full install routine we would have just written: Similarly, if this had been a CMake-based package we would have been filling in a ``cmake_args`` function instead of ``configure_args``. There are similar default package types for -many build environments. +many build environments that will be discussed later in the tutorial. -------- Variants @@ -440,13 +490,16 @@ configure line (output truncated for length): $ spack install --verbose mpileaks stackstart=4 ... ==> Installing mpileaks - ==> Using cached archive: SPACK_ROOT/var/spack/cache/mpileaks/mpileaks-1.0.tar.gz - ==> Staging archive: SPACK_ROOT/var/spack/stage/mpileaks-1.0-gxxi4fp57b4j6xalra5t65hyx5rj25t7/mpileaks-1.0.tar.gz - ==> Created stage in SPACK_ROOT/var/spack/stage/mpileaks-1.0-gxxi4fp57b4j6xalra5t65hyx5rj25t7 + ==> Searching for binary cache of mpileaks + ==> Finding buildcaches in /mirror/build_cache + ==> No binary for mpileaks found: installing from source + ==> Using cached archive: /home/ubuntu/packaging/spack/var/spack/cache/mpileaks/mpileaks-1.0.tar.gz + ==> Staging archive: /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-meufjojkxve3l7rci2mbud3faidgplto/mpileaks-1.0.tar.gz + ==> Created stage in /home/ubuntu/packaging/spack/var/spack/stage/mpileaks-1.0-meufjojkxve3l7rci2mbud3faidgplto ==> No patches needed for mpileaks ==> Building mpileaks [Package] ==> Executing phase: 'install' - ==> './configure' '--with-adept-utils=SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/adept-utils-1.0.1-pm3gffhrnwsdtqthtvsfvs2tny4r65wb' '--with-callpath=SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/callpath-1.0.4-ikbbkvfmsfmqzo624nvvrbooovf7egoc' '--prefix=SPACK_ROOT/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpileaks-1.0-gxxi4fp57b4j6xalra5t65hyx5rj25t7' '--with-stack-start-c=4' '--with-stack-start-fortran=4' + ==> './configure' '--with-adept-utils=/home/ubuntu/packaging/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/adept-utils-1.0.1-7tippnvo5g76wpijk7x5kwfpr3iqiaen' '--with-callpath=/home/ubuntu/packaging/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/callpath-1.0.4-empvyxdkc4j4pwg7gznwhbiumruey66x' '--prefix=/home/ubuntu/packaging/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/mpileaks-1.0-meufjojkxve3l7rci2mbud3faidgplto' '--with-stack-start-c=4' '--with-stack-start-fortran=4' --------------- The Spec Object |