.. Copyright 2013-2018 Lawrence Livermore National Security, LLC and other Spack Project Developers. See the top-level COPYRIGHT file for details. SPDX-License-Identifier: (Apache-2.0 OR MIT) .. _basics-tutorial: ========================================= Basic Installation Tutorial ========================================= This tutorial will guide you through the process of installing software using Spack. We will first cover the `spack install` command, focusing on the power of the spec syntax and the flexibility it gives to users. We will also cover the `spack find` command for viewing installed packages and the `spack uninstall` command. Finally, we will touch on how Spack manages compilers, especially as it relates to using Spack-built compilers within Spack. We will include full output from all of the commands demonstrated, although we will frequently call attention to only small portions of that output (or merely to the fact that it succeeded). The provided output is all from an AWS instance running Ubuntu 16.04 .. _basics-tutorial-install: ---------------- 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, v0.12. .. code-block:: console $ git clone https://github.com/spack/spack git clone https://github.com/spack/spack Cloning into 'spack'... 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/v0.12 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`` variable, source the spack setup script. Then add Spack to your path. .. code-block:: console $ . share/spack/setup-env.sh You're good to go! ----------------- What is in Spack? ----------------- The ``spack list`` command shows available packages. .. code-block:: console $ spack list ==> 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 automatically adds wildcards to both ends of the string. For example, we can view all available python packages. .. code-block:: console $ spack list py- ==> 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 ... ------------------- Installing Packages ------------------- Installing a package with Spack is very simple. To install a piece of software, simply type ``spack install ``. .. code-block:: console $ spack install zlib ==> Installing zlib ==> 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/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: 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 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 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) " imported gpg: Total number processed: 1 gpg: imported: 1 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 configurations of the package. The ``%`` sigil is used to specify compilers. .. code-block:: console $ 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:///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:///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 Nov 10 05:08:01 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 zlib from binary cache [+] /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 allows Spack to support arbitrarily versioned software. You can check for particular versions before requesting them. We will use the ``spack versions`` command to see the available versions, and then install a different version of ``zlib``. .. code-block:: console $ spack versions zlib ==> Safe versions (already checksummed): 1.2.11 1.2.8 1.2.3 ==> Remote versions (not yet checksummed): 1.2.10 1.2.7 1.2.5.1 1.2.4.2 1.2.3.7 ... The ``@`` sigil is used to specify versions, both of packages and of compilers. .. code-block:: console $ spack install zlib@1.2.8 ==> Installing zlib ==> Searching for binary cache of zlib ==> Finding buildcaches in /mirror/build_cache ==> Installing zlib from binary cache ==> 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 Nov 10 05:18:30 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 zlib from binary cache [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/zlib-1.2.8-bkyl5bhuep6fmhuxzkmhqy25qefjcvzc $ spack install zlib %gcc@4.7 ==> Installing zlib ==> Searching for binary cache of zlib ==> Finding buildcaches in /mirror/build_cache ==> Installing zlib from binary cache ==> 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 Nov 10 04:55:30 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 zlib from binary cache [+] /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 ``ldlibs`` parameters. The values of these fields must be quoted on the command line if they include spaces. These values are injected into the compile line automatically by the Spack compiler wrappers. .. code-block:: console $ spack install zlib @1.2.8 cppflags=-O3 ==> Installing zlib ==> Searching for binary cache of zlib ==> Finding buildcaches in /mirror/build_cache ==> Installing zlib from binary cache ==> 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 Nov 10 05:31:54 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 zlib from binary cache [+] /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 shows the hash of each package, and the ``-f`` flag shows any non-empty compiler flags of those packages. .. code-block:: console $ spack find ==> 5 installed packages. -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- zlib@1.2.11 -- linux-ubuntu16.04-x86_64 / gcc@4.7 --------------------------- zlib@1.2.11 -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- zlib@1.2.8 zlib@1.2.8 zlib@1.2.11 $ spack find -lf ==> 5 installed packages. -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- 4pt75q7 zlib@1.2.11%clang -- linux-ubuntu16.04-x86_64 / gcc@4.7 --------------------------- bq2wtdx zlib@1.2.11%gcc -- 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 Spack generates a hash for each spec. This hash is a function of the full provenance of the package, so any change to the spec affects the hash. Spack uses this value to compare specs and to generate unique installation directories for every combinatorial version. As we move into more complicated packages with software dependencies, we can see that Spack reuses existing packages to satisfy a dependency only when the existing package's hash matches the desired spec. .. code-block:: console $ 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 Nov 10 05:07:15 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 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 top-level package, we can also specify about a dependency using ``^``. .. code-block:: console $ spack install tcl ^zlib @1.2.8 %clang ==> Installing zlib ==> Searching for binary cache of zlib ==> Finding buildcaches in /mirror/build_cache ==> Installing zlib from binary cache ==> 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 Nov 10 05:09:01 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 zlib from binary cache [+] /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 Nov 10 05:10:21 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 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 of our optimized installation of zlib (``cppflags="-O3"``) began with ``64mns5m``. We can now explicitly build with that package without typing the entire spec, by using the ``/`` sigil to refer to it by hash. As with other tools like git, you do not need to specify an *entire* hash on the command line. You can specify just enough digits to identify a hash uniquely. If a hash prefix is ambiguous (i.e., two or more installed packages share the prefix) then spack will report an error. .. code-block:: console $ 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 Nov 10 05:11:53 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 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, even if it also appears as a dependency. .. code-block:: console $ spack find -ldf ==> 9 installed packages -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- 6wc66et tcl@8.6.8%clang i426yu3 ^zlib@1.2.8%clang i426yu3 zlib@1.2.8%clang 4pt75q7 zlib@1.2.11%clang -- linux-ubuntu16.04-x86_64 / gcc@4.7 --------------------------- bq2wtdx zlib@1.2.11%gcc -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- am4pbat tcl@8.6.8%gcc 64mns5m ^zlib@1.2.8%gcc cppflags="-O3" qhwyccy tcl@8.6.8%gcc 5nus6kn ^zlib@1.2.11%gcc bkyl5bh zlib@1.2.8%gcc 64mns5m zlib@1.2.8%gcc cppflags="-O3" 5nus6kn zlib@1.2.11%gcc Let's move on to slightly more complicated packages. ``HDF5`` is a good example of a more complicated package, with an MPI dependency. If we install it "out of the box," it will build with ``openmpi``. .. code-block:: console $ spack install hdf5 ==> Installing libsigsegv ==> Searching for binary cache of libsigsegv ==> Finding buildcaches in /mirror/build_cache ==> Installing libsigsegv from binary cache ==> 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 Nov 10 05:08:01 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 libsigsegv from binary cache [+] /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:///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 Nov 10 05:24:11 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 m4 from binary cache [+] /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:///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 Nov 10 05:12:47 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 libtool from binary cache [+] /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 Nov 10 05:00:47 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 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:///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 Nov 10 05:31:54 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 util-macros from binary cache [+] /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:///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 Nov 10 05:09:34 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 libpciaccess from binary cache [+] /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:///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 Nov 10 05:05:03 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 xz from binary cache [+] /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:///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 Nov 10 04:56:04 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 libxml2 from binary cache [+] /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) " [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) " [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) " [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) " [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) " [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) " [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) " [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:///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 Nov 10 05:08:00 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 hwloc from binary cache [+] /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:///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 Nov 10 05:01:54 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 openmpi from binary cache [+] /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:///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 Nov 10 05:23:04 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 hdf5 from binary cache [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/hdf5-1.10.4-ozyvmhzdew66byarohm4p36ep7wtcuiw 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 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 /mirror/build_cache ==> Installing hdf5 from binary cache ==> 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 Nov 10 05:23:24 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 hdf5 from binary cache [+] /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 abstract interfaces like MPI. Spack handles these through "virtual dependencies." A package, such as HDF5, can depend on the MPI interface. Other packages (``openmpi``, ``mpich``, ``mvapich``, etc.) provide the MPI interface. Any of these providers can be requested for an MPI dependency. For example, we can build HDF5 with MPI support provided by mpich by specifying a dependency on ``mpich``. Spack also supports versioning of virtual dependencies. A package can depend on the MPI interface at version 3, and provider packages specify what version of the interface *they* provide. The partial spec ``^mpi@3`` can be safisfied by any of several providers. .. code-block:: console $ 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) " [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) " [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 ==> Installing mpich from binary cache ==> 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 Nov 10 05:23:57 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 mpich from binary cache [+] /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:///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 Nov 10 05:07:32 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 hdf5 from binary cache [+] /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 ==> 32 installed packages -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- 6wc66et tcl@8.6.8%clang i426yu3 ^zlib@1.2.8%clang i426yu3 zlib@1.2.8%clang 4pt75q7 zlib@1.2.11%clang -- linux-ubuntu16.04-x86_64 / gcc@4.7 --------------------------- bq2wtdx zlib@1.2.11%gcc -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- 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 ozyvmhz hdf5@1.10.4%gcc 3njc4q5 ^openmpi@3.1.3%gcc 43tkw5m ^hwloc@1.11.9%gcc 5urc6tc ^libpciaccess@0.13.5%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 xxd7syh hdf5@1.10.4%gcc p3f7p2r ^mpich@3.2.1%gcc 5nus6kn ^zlib@1.2.11%gcc 43tkw5m hwloc@1.11.9%gcc 5urc6tc ^libpciaccess@0.13.5%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 fypapcp libsigsegv@2.11%gcc o2pfwjf libtool@2.4.6%gcc wpexsph libxml2@2.9.8%gcc teneqii ^xz@5.2.4%gcc 5nus6kn ^zlib@1.2.11%gcc suf5jtc m4@1.4.18%gcc fypapcp ^libsigsegv@2.11%gcc p3f7p2r mpich@3.2.1%gcc 3o765ou ncurses@6.1%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 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 nxhwrg7 readline@7.0%gcc 3o765ou ^ncurses@6.1%gcc am4pbat tcl@8.6.8%gcc 64mns5m ^zlib@1.2.8%gcc cppflags="-O3" qhwyccy tcl@8.6.8%gcc 5nus6kn ^zlib@1.2.11%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 teneqii xz@5.2.4%gcc bkyl5bh zlib@1.2.8%gcc 64mns5m zlib@1.2.8%gcc cppflags="-O3" 5nus6kn zlib@1.2.11%gcc Spack models the dependencies of packages as a directed acyclic graph (DAG). The ``spack find -d`` command shows the tree representation of that graph. We can also use the ``spack graph`` command to view the entire DAG as a graph. .. code-block:: console $ spack graph hdf5+hl+mpi ^mpich o hdf5 |\ 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 dependencies that were installed implicitly. A few packages installed implicitly are not shown as dependencies in the ``spack find -d`` output. These are build dependencies. For example, ``libpciaccess`` is a dependency of openmpi and requires ``m4`` to build. Spack will build ``m4`` as part of the installation of ``openmpi``, but it does not become a part of the DAG because it is not linked in at run time. Spack handles build dependencies differently because of their different (less strict) consistency requirements. It is entirely possible to have two packages using different versions of a dependency to build, which obviously cannot be done with linked dependencies. ``HDF5`` is more complicated than our basic example of zlib and openssl, but it's still within the realm of software that an experienced HPC user could reasonably expect to install given a bit of time. Now let's look at an even more complicated package. .. code-block:: console $ 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) " [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 ==> Installing bzip2 from binary cache ==> 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 Nov 10 05:34:37 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 bzip2 from binary cache [+] /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:///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 Nov 10 04:58:55 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 boost from binary cache [+] /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 Nov 10 05:24:10 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 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:///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 Nov 10 05:33:15 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 cmake from binary cache [+] /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:///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 Nov 10 05:30:33 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 glm from binary cache [+] /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:///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 Nov 10 05:09:10 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 hdf5 from binary cache [+] /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:///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 Nov 10 05:32:04 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 openblas from binary cache [+] /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:///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 Nov 10 05:07:34 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 hypre from binary cache [+] /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:///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 Nov 10 05:05:13 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 matio from binary cache [+] /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:///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 Nov 10 05:31:42 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 metis from binary cache [+] /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:///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 Nov 10 05:07:22 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 netlib-scalapack from binary cache [+] /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:///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 Nov 10 05:18:32 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 mumps from binary cache [+] /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:///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 Nov 10 05:11:57 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 netcdf from binary cache [+] /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:///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 Nov 10 05:12:04 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 parmetis from binary cache [+] /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:///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 Nov 10 05:22:54 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 suite-sparse from binary cache [+] /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:///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 Nov 10 05:18:10 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 trilinos from binary cache 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 ``trilinos`` again specifying a dependency on our previous HDF5 built with ``mpich``: .. code-block:: console $ 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 /mirror/build_cache ==> Installing hypre from binary cache ==> 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 Nov 10 05:34:36 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 hypre from binary cache [+] /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:///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 Nov 10 05:25:11 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 matio from binary cache [+] /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:///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 Nov 10 05:32:20 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 netlib-scalapack from binary cache [+] /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:///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 Nov 10 05:33:18 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 mumps from binary cache [+] /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:///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 Nov 10 05:24:01 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 netcdf from binary cache [+] /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:///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 Nov 10 05:07:41 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 parmetis from binary cache [+] /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:///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 Sat Nov 10 05:30:15 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 trilinos from binary cache [+] /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 uses ``mpich``. .. code-block:: console $ spack find -d trilinos ==> 2 installed packages -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- trilinos@12.12.1 ^boost@1.68.0 ^bzip2@1.0.6 ^zlib@1.2.11 ^glm@0.9.7.1 ^hdf5@1.10.4 ^openmpi@3.1.3 ^hwloc@1.11.9 ^libpciaccess@0.13.5 ^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@4.6.1 ^parmetis@4.0.3 ^suite-sparse@5.3.0 trilinos@12.12.1 ^boost@1.68.0 ^bzip2@1.0.6 ^zlib@1.2.11 ^glm@0.9.7.1 ^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@4.6.1 ^parmetis@4.0.3 ^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 complicated packages, including trilinos, have dependencies that cannot be fully represented as a tree. Again, the ``spack graph`` command shows the full DAG of the dependency information. .. code-block:: console $ spack graph trilinos o trilinos |\ | |\ | | |\ | | | |\ | | | | |\ | | | | | |\ | | | | | | |\ | | | | | | | |\ | | | | | | | | |\ | | | | | | | | | |\ | | | | | | | | | | |\ | | | | | | | | | | | |\ | | | | | | | | | | | | |\ o | | | | | | | | | | | | | suite-sparse |\ \ \ \ \ \ \ \ \ \ \ \ \ \ | |_|_|/ / / / / / / / / / / |/| | | | | | | | | | | | | | |\ \ \ \ \ \ \ \ \ \ \ \ \ | | |_|_|_|_|_|/ / / / / / / | |/| | | | | | | | | | | | | | | |_|_|_|_|_|_|_|/ / / | | |/| | | | | | | | | | | | | o | | | | | | | | | parmetis | | |/| | | | | | | | | | | |/|/| | | | | | | | | | | | | |/ / / / / / / / / | | | | | | o | | | | | mumps | |_|_|_|_|/| | | | | | |/| | | |_|/| | | | | | | | | |/| |/ / / / / / | | | | |/| | | | | | | | | | o | | | | | | netlib-scalapack | |_|_|/| | | | | | | |/| | |/| | | | | | | | | |/|/ / / / / / / | o | | | | | | | | metis | |/ / / / / / / / | | | | | | | o | glm | | |_|_|_|_|/ / | |/| | | | | | | 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 | | | | | 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. The ASCII output from ``spack graph`` can be difficult to parse for complicated packages. The output can be changed to the ``graphviz`` ``.dot`` format using the ``--dot`` flag. .. code-block:: console $ spack graph --dot trilinos | dot -Tpdf trilinos_graph.pdf .. _basics-tutorial-uninstall: --------------------- Uninstalling Packages --------------------- 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 tcl ==> 3 installed packages -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- tcl@8.6.8 ^zlib@1.2.8 -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- tcl@8.6.8 ^zlib@1.2.8 tcl@8.6.8 ^zlib@1.2.11 $ spack find zlib ==> 6 installed packages. -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- zlib@1.2.8 zlib@1.2.11 -- linux-ubuntu16.04-x86_64 / gcc@4.7 --------------------------- zlib@1.2.11 -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- zlib@1.2.8 zlib@1.2.8 zlib@1.2.11 We can uninstall packages by spec using the same syntax as install. .. code-block:: console $ spack uninstall zlib %gcc@4.7 ==> The following packages will be uninstalled: -- linux-ubuntu16.04-x86_64 / gcc@4.7 --------------------------- bq2wtdx zlib@1.2.11%gcc+optimize+pic+shared ==> Do you want to proceed? [y/N] y ==> Successfully uninstalled zlib@1.2.11%gcc@4.7+optimize+pic+shared arch=linux-ubuntu16.04-x86_64 /bq2wtdx $ spack find -lf zlib ==> 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. We can use either ``-f`` (force) or ``-R`` (remove dependents as well) to remove packages that are required by another installed package. .. code-block:: console $ spack uninstall zlib/i426 ==> 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 -------------- 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 -------------- 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 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 specified. The ``-a`` (all) flag can be used to uninstall multiple packages at once. .. code-block:: console $ spack uninstall trilinos ==> Error: trilinos matches multiple packages: -- 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 /rlsr ==> The following packages will be uninstalled: -- 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 ~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 ----------------------------- We will go over some additional uses for the ``spack find`` command not already covered in the :ref:`basics-tutorial-install` and :ref:`basics-tutorial-uninstall` sections. The ``spack find`` command can accept what we call "anonymous specs." These are expressions in spec syntax that do not contain a package name. For example, ``spack find ^mpich`` will return every installed package that depends on mpich, and ``spack find cppflags="-O3"`` will return every package which was built with ``cppflags="-O3"``. .. code-block:: console $ spack find ^mpich ==> 8 installed packages -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- 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. -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- zlib@1.2.8 The ``find`` command can also show which packages were installed 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 -px ==> 10 installed packages -- linux-ubuntu16.04-x86_64 / clang@3.8.0-2ubuntu4 -------------- 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@1.10.4 /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 --------------------- Spack manages a list of available compilers on the system, detected automatically from from the user's ``PATH`` variable. The ``spack compilers`` command is an alias for the command ``spack compiler list``. .. code-block:: console $ spack compilers ==> Available compilers -- clang ubuntu16.04-x86_64 ------------------------------------- clang@3.8.0-2ubuntu4 clang@3.7.1-2ubuntu2 -- gcc ubuntu16.04-x86_64 --------------------------------------- gcc@5.4.0 gcc@4.7 The compilers are maintained in a YAML file. Later in the tutorial you will learn how to configure compilers by hand for special cases. Spack also has tools to add compilers, and compilers built with Spack can be added to the configuration. .. code-block:: console $ spack install gcc @7.2.0 ==> 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:///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 Sat Nov 10 05:18:16 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 gmp from binary cache [+] /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:///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 Sat Nov 10 05:05:19 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 isl from binary cache [+] /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:///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 Sat Nov 10 05:32:07 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 mpfr from binary cache [+] /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:///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 Sat Nov 10 05:30:35 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 mpc from binary cache [+] /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:///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 Sat Nov 10 05:22:47 2018 UTC using RSA key ID 3B7C69B2 gpg: Good signature from "sc-tutorial (GPG created for Spack) " [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 gcc from binary cache [+] /home/spack1/spack/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/gcc-7.2.0-b7smjjcsmwe5u5fcsvjmonlhlzzctnfs $ spack find -p gcc spack find -p gcc ==> 1 installed package -- linux-ubuntu16.04-x86_64 / gcc@5.4.0 ------------------------- 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 gcc@7.2.0. .. code-block:: console $ 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: /home/ubuntu/.spack/linux/compilers.yaml We can also remove compilers from our configuration using ``spack compiler remove `` .. code-block:: console $ spack compiler remove gcc@7.2.0 ==> Removed compiler gcc@7.2.0