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2016-07-30Merge pull request #1391 from glennpj/r-caretTodd Gamblin1-0/+50
New package - r-caret
2016-07-30Merge pull request #1390 from glennpj/r-glmnetTodd Gamblin1-0/+49
New package - r-glmnet
2016-07-30Merge pull request #1389 from glennpj/r-vcdTodd Gamblin2-0/+95
New package - r-vcd
2016-07-30Merge pull request #1388 from glennpj/r-multcompTodd Gamblin5-0/+226
New package - r-multcomp
2016-07-30Merge pull request #1387 from glennpj/r-randomforestTodd Gamblin1-0/+42
New package r-randomforest
2016-07-30New package - r-quantmodGlenn Johnson2-0/+90
Qualitative Financial modelling framework.
2016-07-30New package - r-ggmap and dependenciesGlenn Johnson8-0/+375
Spatial visualization with ggplot2
2016-07-30New package - r-mapsGlenn Johnson1-0/+42
Draw geographical maps.
2016-07-30New package - r-maptoolsGlenn Johnson1-0/+49
Tools for reading and handling spatial objects.
2016-07-30New package - r-caretGlenn Johnson1-0/+50
Classification and Regression Training
2016-07-30New package - r-glmnetGlenn Johnson1-0/+49
Lasso and Elastic-Net Regularized Generalized Linear Models
2016-07-30New package - r-vcdGlenn Johnson2-0/+95
Visualizing Categorical Data
2016-07-30New package - r-multcompGlenn Johnson5-0/+226
Simultaneous Inference in General Parametric Models.
2016-07-30New package r-randomforestGlenn Johnson1-0/+42
Breiman and Cutler's Random Forests for Classification and Regression.
2016-07-30Have R extensions build in parallel.Glenn Johnson1-0/+4
Set `MAKEFLAGS` so R extensions can be built in parallel if that is set in spack.
2016-07-30New package r-carGlenn Johnson11-0/+510
Companion to Applied Regression.
2016-07-29GTK+3: Provide updates to package dependencies.Kelly (KT) Thompson5-5/+49
WIP: I started trying to build gtkplus@3.20, but this package has many more dependencies than v2 and it requires newer versions of existing packages. This commit provides updates for 5 packages that are required by GTK+3. This is not the complete set of changes required for GTK+3. atk - move default version from 2.14 -> 2.20. glib - move default version from 2.42 -> 2.49 - v2.49 requires pcre+utf as a new dependency. pcre - if variant +utf is selected, add '--enable-unicode-properties' to the configure options. libepoxy - new package to spack - manages OpenGL function pointers. pango - move default version from 1.36 -> 1.40
2016-07-29mkl: flake8 fixes; minor docu updateDenis Davydov1-5/+5
2016-07-29trilinos: make sure hdf5 is picked up from SpackDenis Davydov1-3/+10
2016-07-29trilinos: fix lapack lib dirDenis Davydov1-1/+1
2016-07-29hypre: minor cleanup related to blas/lapackDenis Davydov1-2/+2
2016-07-29mkl: symlink libs to prefix.libDenis Davydov1-0/+8
2016-07-28Merge pull request #1344 from LLNL/bugfix/py-nose-nosetestsTodd Gamblin1-1/+1
do not ignore nosetests script in py-nose
2016-07-28Merge pull request #1331 from adamjstewart/fixes/mvapich2becker331-0/+1
MVAPICH2 depends on libpciaccess
2016-07-27Merge pull request #1235 from davydden/pkg/p4est_run_testsbecker331-22/+18
p4est: use run_tests instead of a variant
2016-07-27Add package for treeGeorge Hartzell1-0/+46
Add a package for [tree](http://mama.indstate.edu/users/ice/tree/). It has a Makefile that hardcodes a prefix and some CFLAGS. Used filter_file to: - set the make variable *prefix* to `prefix`; and - comment out their CFLAGS, just use ours.... It installs, runs on CentOS7, and uninstalls cleanly.
2016-07-27Merge pull request #1350 from adamjstewart/fixes/opensslTodd Gamblin1-1/+1
Fix OpenSSL url_for_version
2016-07-25intel parallel studio itac fixesGreg Lee1-1/+7
2016-07-25intel parallel studio setup mkl environmentGreg Lee1-0/+25
2016-07-25Added libhio packageSamuel Knight1-0/+45
2016-07-25Merge pull request #1352 from glennpj/r_googlevisbecker331-0/+47
New package - r-googlevis
2016-07-25Merge pull request #1351 from glennpj/r_htmlwidgetsbecker3330-0/+1359
New packages - R htmlwidgets
2016-07-25Add py-setuptools as dependencyGlenn Johnson4-0/+4
With the addition of dependency types and with `py-setuptools` set as type='build' there are more packages that need to have `py-setuptools` added as a dependency. This PR adds that dependency for the following packages: - py-h5py - py-networkx - py-pytables - py-scikit-image
2016-07-24r-curl update and chaged remote archiveGlenn Johnson1-1/+2
This updates to the 1.0 version of r-curl. The remote archive directory name also changed so change that here as well.
2016-07-24New packages - R htmlwidgetsGlenn Johnson30-0/+1359
2016-07-24New package - r-googlevisGlenn Johnson1-0/+47
2016-07-24Fix OpenSSL url_for_versionAdam J. Stewart1-1/+1
2016-07-23Add dependency type tp r- packagesGlenn Johnson29-93/+95
This PR adds the `nolink` dependency type to r- package dependencies. This is needed due to the new dependency types in Spack. A couple of packages were updated with new versions as well.
2016-07-22do not ignore nosetests script in py-noseGreg Lee1-1/+1
2016-07-22R extension dependencies with compiler wrapperGlenn Johnson1-15/+25
This commit introduces a mechanism to insure that R package dependencies are built with the Spack compiler wrapper. A copy of Makeconf is made before `filter_compilers` is called. This is then pointed to by the R_MAKEVARS_SITE environment variable set up in `setup_dependent_environment`. With this the normal compilers are used outside of spack and the spack wrapper compilers are used inside of spack. This commit also standardizes on the `join_path` call. It also sets the commented build command to reflect what is actually used with the newer string formatting.
2016-07-22Add CGNS packageAdam J. Stewart1-0/+73
2016-07-22Merge pull request #950 from xjrc/packages/pythonTodd Gamblin2-38/+43
Enhancement Proposal: Make Python Spack Installs Ignore User Configuration
2016-07-22Adding temporary script that fixes all Python extensions w/ 'setup_py'.Joseph Ciurej1-2/+5
2016-07-22Improved the build flag construction code in the python install method.Joseph Ciurej1-27/+7
2016-07-22Fixed a bug that was causing Python installs to be affected by user config.Joseph Ciurej1-9/+31
2016-07-22Merge pull request #1336 from glennpj/rcaseTodd Gamblin9-11/+15
Fix alpha case of dependencies for some r-packages
2016-07-21Merge pull request #1230 from hartzell/update-jdkTodd Gamblin1-10/+10
Add URL and md5 for jdk-8u92.
2016-07-21Fix alpha case of dependencies.Glenn Johnson9-11/+15
A while ago I was asked to convert packages to all lowercase. That was done but some dependencies did not get converted in the specification. This commit fixes that as well as a couple of urls that need to be made explicit and a missing dependency on jdk.
2016-07-21Merge pull request #1333 from LLNL/features/no-openssl-pingingTodd Gamblin1-56/+9
Remove remote website pinging from OpenSSL
2016-07-21Merge pull request #1334 from hartzell/add-gcc-5.4.0Todd Gamblin1-0/+1
Update gcc package with info about gcc-5.4.0
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