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2018-11-20Add 2019.1 and 2018.4 version of the Intel performance libraries. (#9899)Jon Rood5-0/+17
* Add 2019.1 and 2018.4 version of the Intel performance libraries. * Fixing typo.
2018-11-19mpifileutils: add v0.8.1 (#9346)Adam Moody1-0/+1
2018-11-19openssl: make 1.1.1 the default version (#9836)Michael Kuhn1-3/+8
* openssl: add 1.0.2p, 1.1.0i and 1.1.1 * openssl: make 1.1.1 the default version
2018-11-19added several new perl modules (#9760)Justin Stanley17-0/+270
2018-11-19circos: new package starting at 0.69-6 (#9761)Justin Stanley1-0/+43
* circos: new package starting at 0.69-6 * circos: add homepage, simplify paths * circos: simplified more paths
2018-11-19gdk-pixbuf: explicitly disable building of gtk-docs (#9882)Sinan1-0/+11
2018-11-19r-rrpp: new package (#9887)Levi Baber1-0/+29
2018-11-19Adding openmpi version 4.0.0 (#9888)Jon Rood1-4/+5
2018-11-19breseq: Add version 0.33.1 (#9889)Eric1-0/+1
2018-11-19package/harfbuzz: disable building of gtk-docs, add new version (#9891)Sinan1-0/+12
2018-11-19r-crosstalk: remove unnecessary constraint (#9892)Levi Baber1-1/+0
2018-11-19r-geomorph: new version (#9890)Levi Baber1-0/+3
* r-geomorph: new version * r-geomorph: min r version
2018-11-19r-diversitree: new package (#9893)Levi Baber1-0/+33
* r-diversitree: new package * r-diversitree: system reqs
2018-11-19r-paleotree: new package (#9895)Levi Baber1-0/+24
2018-11-19package/pango: disable gtk-docs (#9896)Sinan1-0/+9
2018-11-19package/gtkplus: disable gtk-docs (#9897)Sinan1-0/+11
2018-11-19Explicitly set FC= empty for non-fortran builds (#9898)Mark C. Miller1-0/+2
2018-11-19Trimmomatic: Add version 0.38 (#9883)Eric1-0/+1
2018-11-19Adding intel-parallel-studio cluster 2019.1 version (#9884)Jon Rood1-0/+1
2018-11-19Add UCX v1.4.0 (#9881)Daniel Topa1-1/+3
Verification build dantopa@darwin-fe2.lanl.gov:pr.ucx.spack $ spack install ucx % gcc @ 4.8.5 ==> Installing libsigsegv ==> Installing m4 ==> Installing pkgconf ==> Installing ncurses ==> Installing readline ==> Installing gdbm ==> Installing perl ==> Installing autoconf ==> Installing automake ==> Installing libtool ==> Installing numactl ==> Installing zlib ==> Installing openssl ==> Installing diffutils ==> Installing bzip2 ==> Installing xz ==> Installing libxml2 ==> Installing tar ==> Installing gettext ==> Installing help2man ==> Installing bison ==> Installing flex ==> Installing libnl ==> Installing rdma-core ==> Installing ucx ==> Successfully installed ucx Fetch: 1.17s. Build: 40.59s. Total: 41.76s. [+] /scratch/users/dantopa/new-spack/pr.ucx.spack/opt/spack/linux-centos7-x86_64/gcc-4.8.5/ucx-1.4.0-ilfonxj2f5my4ur65li3sr7kuvfg3kim dantopa@darwin-fe2.lanl.gov:pr.ucx.spack $ spack spec ucx Input spec -------------------------------- ucx Concretized -------------------------------- ucx@1.4.0%gcc@4.8.5 arch=linux-centos7-x86_64 ^numactl@2.0.11%gcc@4.8.5 patches=592f30f7f5f757dfc239ad0ffd39a9a048487ad803c26b419e0f96b8cda08c1a arch=linux-centos7-x86_64 ^autoconf@2.69%gcc@4.8.5 arch=linux-centos7-x86_64 ^m4@1.4.18%gcc@4.8.5 patches=3877ab548f88597ab2327a2230ee048d2d07ace1062efe81fc92e91b7f39cd00,c0a408fbffb7255fcc75e26bd8edab116fc81d216bfd18b473668b7739a4158e,fc9b61654a3ba1a8d6cd78ce087e7c96366c290bc8d2c299f09828d793b853c8 +sigsegv arch=linux-centos7-x86_64 ^libsigsegv@2.11%gcc@4.8.5 arch=linux-centos7-x86_64 ^perl@5.26.2%gcc@4.8.5+cpanm patches=0eac10ed90aeb0459ad8851f88081d439a4e41978e586ec743069e8b059370ac +shared+threads arch=linux-centos7-x86_64 ^gdbm@1.18.1%gcc@4.8.5 arch=linux-centos7-x86_64 ^readline@7.0%gcc@4.8.5 arch=linux-centos7-x86_64 ^ncurses@6.1%gcc@4.8.5~symlinks~termlib arch=linux-centos7-x86_64 ^pkgconf@1.5.4%gcc@4.8.5 arch=linux-centos7-x86_64 ^automake@1.16.1%gcc@4.8.5 arch=linux-centos7-x86_64 ^libtool@2.4.6%gcc@4.8.5 arch=linux-centos7-x86_64 ^rdma-core@20%gcc@4.8.5 build_type=RelWithDebInfo arch=linux-centos7-x86_64 ^cmake@3.12.4%gcc@4.8.5~doc+ncurses+openssl+ownlibs patches=dd3a40d4d92f6b2158b87d6fb354c277947c776424aa03f6dc8096cf3135f5d0 ~qt arch=linux-centos7-x86_64 ^openssl@1.0.2o%gcc@4.8.5+systemcerts arch=linux-centos7-x86_64 ^zlib@1.2.11%gcc@4.8.5+optimize+pic+shared arch=linux-centos7-x86_64 ^libnl@3.3.0%gcc@4.8.5 arch=linux-centos7-x86_64 ^bison@3.0.5%gcc@4.8.5 arch=linux-centos7-x86_64 ^diffutils@3.6%gcc@4.8.5 arch=linux-centos7-x86_64 ^help2man@1.47.4%gcc@4.8.5 arch=linux-centos7-x86_64 ^gettext@0.19.8.1%gcc@4.8.5+bzip2+curses+git~libunistring+libxml2 patches=9acdb4e73f67c241b5ef32505c9ddf7cf6884ca8ea661692f21dca28483b04b8 +tar+xz arch=linux-centos7-x86_64 ^bzip2@1.0.6%gcc@4.8.5+shared arch=linux-centos7-x86_64 ^libxml2@2.9.8%gcc@4.8.5~python arch=linux-centos7-x86_64 ^xz@5.2.4%gcc@4.8.5 arch=linux-centos7-x86_64 ^tar@1.30%gcc@4.8.5 arch=linux-centos7-x86_64 ^flex@2.6.3%gcc@4.8.5+lex arch=linux-centos7-x86_64 Environment: dantopa@darwin-fe2.lanl.gov:pr.ucx.spack $ echo $HOSTNAME darwin-fe2.lanl.gov dantopa@darwin-fe2.lanl.gov:pr.ucx.spack $ grep -i 'model name' /proc/cpuinfo | sort | uniq model name : Intel(R) Xeon(R) CPU E5-2695 v3 @ 2.30GHz dantopa@darwin-fe2.lanl.gov:pr.ucx.spack $ lsb_release -d -bash: lsb_release: command not found dantopa@darwin-fe2.lanl.gov:pr.ucx.spack $ uname -a Linux darwin-fe2.lanl.gov 4.18.8-1.el7.elrepo.x86_64 #1 SMP Sat Sep 15 10:10:09 EDT 2018 x86_64 x86_64 x86_64 GNU/Linux dantopa@darwin-fe2.lanl.gov:pr.ucx.spack $ date Mon Nov 19 10:47:47 MST 2018 dantopa@darwin-fe2.lanl.gov:pr.ucx.spack $ pwd /scratch/users/dantopa/new-spack/pr.ucx.spack Signed-off-by: Daniel Topa <dantopa@lanl.gov>
2018-11-19new package: mongo-cxx-driver (#9880)Andrea Negri1-0/+18
* new package: mongo-cxx-driver * fixed url
2018-11-19samtools: make zlib/bzip2 dependencies unconditional (#9866)Eric1-2/+2
2018-11-18libmongoc: updated versions (#9877)Andrea Negri1-2/+8
2018-11-18New package: ecFlow, a work flow manager. (#9867)Alberto Chiusole1-0/+30
* New package: ecFlow, a work flow manager. * Fix pep8 style issues.
2018-11-17Add +x variant to petsc. (#9830)Sajid Ali1-1/+9
* modified: var/spack/repos/builtin/packages/petsc/package.py * Update package.py * Update package.py * Update package.py * Update package.py
2018-11-17mixcr: Added a new package for MiXCR. (#9864)simo-tuomisto1-0/+29
* mixcr: Added a new package for MiXCR. * mixcr: Fixed spack license string.
2018-11-16lammps package: added new versions (#9868)Christoph Junghans1-0/+7
2018-11-16py-cython: add new versions (#9846)Sinan1-0/+2
2018-11-16new package: r-gensa (starting at 1.1.7) (#9858)Justin Stanley1-0/+21
2018-11-16py-ply: fix download url (#9862)Eric1-2/+2
2018-11-16vt package: add zlib dependency (#9870)Eric1-0/+2
2018-11-16intel-mkl: fix usage of openmp_libs and tbb_libs (#9863)Denis Davydov1-3/+3
* intel-mkl: fix usage of openmp_libs and tbb_libs * intel-mkl: remove trailing whitespace from openmp lib
2018-11-16r-rgl: update url, add new version (#9796)Levi Baber1-1/+5
2018-11-15py-cffi: add missing pkgconfig dependency (#9784)Michael Kuhn1-0/+1
2018-11-15py-cryptography: add 2.3.1 (#9785)Michael Kuhn1-0/+2
Required for openssl@1.1 compatibility.
2018-11-15krb5: add missing bison dependency for yacc (#9778)Michael Kuhn1-0/+1
2018-11-15globus-toolkit: add missing pkgconfig dependency (#9775)Michael Kuhn1-0/+1
2018-11-15hybpiper: add 1.3.1 (#9762)Justin Stanley0-0/+0
2018-11-15Fix and update verrou (#9847)Hadrien G1-2/+14
* Fix verrou-python integration * Add verrou 2.1.0 * Patch level changed in v2.1.0
2018-11-15dbcsr: minor fixes due to upstream changes (#9799)Denis Davydov1-2/+3
2018-11-15Updated protobuf and py-protobuf to version 3.6.1 (#9536)Leonhard Reichenbach2-2/+5
* Updated protobuf and py-protobuf to version 3.6.1 also updated the download link as the repository has moved * protobuf: modified conflict
2018-11-14Add GMT, CitcomS, and fstrack packages (#9768)Adam J. Stewart8-0/+328
* Add initial packages for citcoms and dependencies * Ignore Pythia imports * Add py-merlin package * Add GMT package * Fixes to get GMT working * Get hc package building * Get CitcomS 3.2.0 working * Add fstrack package * Fix hash
2018-11-14r-cairo: new package (#9794)Levi Baber1-0/+20
* r-cairo: new package * Update var/spack/repos/builtin/packages/r-cairo/package.py Co-Authored-By: baberlevi <baberlevi@gmail.com>
2018-11-14Argobots: added @develop version and +valgrind variant (#9664)dorier1-0/+19
* added develop version in argobots package and added valgrind variant * made autotools required only for develop version * corrected style * Added --disable-valgrind Added --disable-valgrind to explicitly disable it when +valgrind isn't provided.
2018-11-14r-phytools: new package at 0.6-60 (#9766)Justin Stanley1-0/+32
* r-phytools: new package at 0.6-60 * r-phytools: add list_url * r-phytools: add deps, dep versions
2018-11-14openblas: add headers property (#9831)Geoffrey Oxberry1-0/+9
This commit adds only the public headers from the full list of headers installed by OpenBLAS; this list of headers is the same as in netlib-lapack.
2018-11-14elfutils: add version 0.174. (#9812)Mark W. Krentel1-0/+11
Pass cflags to configure so that configure gets the values from the spack install line. Disable -Werror so that we don't fail the build over a stray warning.
2018-11-14libunwind: add version for current snapshot (#9770)Mark W. Krentel1-0/+12
Libunwind releases are few and far between, so we need access to recent snapshots from the git repository. Pass cflags to configure so that make will respect the value from the spack install line.
2018-11-14netcdf-fortran: add LDFLAGS to fix contents of libnetcdff.la. (#9647)Sergey Kosukhin1-3/+10
2018-11-14new package: time (#9842)Levi Baber1-0/+19
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