Merge pull request #9150 from boegel/develop

sync develop with master and bump version to 4.0.2dev

RELEASE_NOTES

@@ -3,9 +3,58 @@ For more detailed information, please see the git log.
 
 These release notes can also be consulted at http://easybuild.readthedocs.org/en/latest/Release_notes.html.
 
-The latest version of easybuild-easyconfig provides 8,378 easyconfig files, for 1,669 different software packages,
+The latest version of easybuild-easyconfig provides 8,479 easyconfig files, for 1,725 different software packages,
 incl. 31 different (compiler) toolchains.
 
+v4.0.1 (October 15th 2019)
+--------------------------
+
+update/bugfix release
+
+- added example easyconfig files for 58 new software packages:
+  - ADOL-C (#9098), ALFA (#9106), ASTRID (#9088), Annif (#8536), bnpy (#8989), bpp-core (#9064), bpp-phyl (#9064),
+    bpp-seq (#9064), Clang-Python-bindings (#9084), CPB (#5869), Centrifuge (#8714), Chromaprint (#9047), Con3F (#8755),
+    DeepSurv (#8096), Essentia (#9054), FastRFS (#9088), GAT (#5871), Gaia (#9049), Gctf (#9097), GenomeMapper (#5872),
+    Infomap (#9091), kpcalg (#8740), libglvnd (#9111, #9130), libsamplerate (#9046), libssh (#8865), libzip (#9073),
+    MetaboAnalystR (#8773), Metaxa2 (#8939), MotionCor2 (#8942), NFFT (#9085), PhyML (#9103), PlaScope (#8714),
+    PyCharm (#9100), pbcopper (#8928), pbmm2 (#8929), phylokit (#9088), phylonaut (#9088), phyx (#9090), pycma (#8834),
+    Q6 (#9069), Qt5Webkit (#9120), ROME (#9050, #9062), rioxarray (#9007), SVDquest (#9088), savvy (#9124),
+    sciClone (#7806), shapAAR (#8983), shrinkwrap (#9124), Structure (#5866), trimAl (#9063), thurstonianIRT (#9080),
+    TurboVNC (#9110, #9111, #9128), Tracer (#8970), TagLib (#9048), TRIQS (#8835), THetA (#8875), vcfnp (#5862),
+    WebSocket++ (#8842)
+- added additional easyconfigs for various supported software packages, including:
+  - Armadillo 9.700.2, arpack-ng 3.7.0, BLASR 5.3.3, Bazel 0.26.1 + Bazel 0.29.1, Cufflinks 20190706,
+    DL_POLY_Classic 1.10, FFmpeg 4.2.1, Go 1.13.1, Horovod 0.18.1, IOR 3.2.1, Julia 1.2.0, LLVM 9.0.0, Mesa 19.1.7,
+    Molden 6.1, Mono 6.4.0.198, NCO 4.8.1, , Net-core 3.0.0, Nim 1.0.0, OpenFOAM 2.2.x, PGI 19.7, PLUMED 2.5.2,
+    PMIx 3.1.4, PostgreSQL 11.3, psycopg2 2.8.3, QGIS 3.4.12, QScintilla 2.11.2, Qt5 5.13.1, ReFrame 2.19,
+    Rust 1.37.0, Spack 0.12.1, TAMkin 1.2.6, TensorFlow 1.14.0 w/ fosscuda/2019a, TensorFlow 2.0.0 w/ foss/2019a,
+    UCX 1.6.1, VEP 96.0, xarray 0.13.0
+- added easyconfigs for fosscuda/2019a toolchain (#9066)
+- minor enhancements, including:
+  - add EBImage extension to easyconfig for R-bundle-Bioconductor 3.9 (#8982)
+  - add check for http:// URLs in easyconfig files added/changed in PRs (#9012)
+  - add bbmle/emdbook/SOAR/rasterVis/tictoc extensions to R 3.6.0 easyconfigs (#9037)
+  - updated PyQt5 5.12.1 easyconfig to also build sip files + minor readability changes (#9071)
+  - enabled SQLITE_ENABLE_COLUMN_METADATA, which is needed for GDAL (and QGIS) (#9118)
+  - also install include/GL/internal/ for recent Mesa installations (#9129)
+- various bug fixes, including:
+  - add ncurses as dependency to lftp (#8646)
+  - add patch for gettext 0.19.8* to avoid picking up global git config that could break the installation (#8957)
+  - fix source_urls in GlimmerHMM easyconfigs (#8980)
+  - add patch for PyTorch 1.2.0 to use version of torchvision that is compatible with PyTorch 1.2.0 (#8986)
+  - clarify the comment regarding the optarch setting in ITK-5.0.1 (#8991)
+  - fix homepage & description in easyconfig file for YAPS (#8993)
+  - add patch for PyTorch 1.2.0 to fix failing softmax test on Intel Sandy Bridge (#9010)
+  - fix permissions for TRF (#9034)
+  - ICU needs Python 2.7+ to build, so add that as builddependency (#9053)
+  - fix urls for Anaconda and Miniconda (#9087)
+  - use a cuDNN version that has support for the CUDA version in fosscuda/2019a (CUDA 10.1) in PyTorch, TensorFlow and Theano easyconfigs (#9112)
+- other changes:
+  - make sources in CUDA 10.1.105 use %(cudaarch)s template value (to use different source on POWER systems) (#8136)
+  - update Java/1.8 wrapper to Java/1.8.0_221 (#9038)
+  - allow divergent Java dep version as long as it's indicated by versionsuffix (#9041)
+
+
 v4.0.0 (September 20th 2019)
 ----------------------------
 
@@ -538,7 +587,7 @@ bugfix/update release
   - enable building of MPI libraries in VTK 8.1.0 easyconfigs (#6460, #6429)
 - minor changes, including:
   - rename 'Canu' to 'canu' for v1.7 (#6389)
-  - update existing easyconfigs for OpenCV 3.4.1 to use new custom easyblock for OpenCV (#6509) 
+  - update existing easyconfigs for OpenCV 3.4.1 to use new custom easyblock for OpenCV (#6509)
   - fix software name in Bsoft easyconfig (#6557)
 - various bug fixes, including:
   - fix SAMtools dependency for ChimPipe, required SAMtools < 1.0 (#5930)
@@ -805,7 +854,7 @@ bugfix/update release
     Python 2.7.14 + 3.6.2, SAMtools 1.6, scikit-image 0.13.0, scikit-learn 0.19.0, Tensorflow 1.3.0, vsc-mympirun 4.0.2
 - minor enhancements, including:
   - add xkeyboard-config component in X11 bundle (#5066)
-  - clean up use of wcleanAll in OpenFOAM-Extend easyconfigs, now handled by OpenFOAM easyblock (#5131) 
+  - clean up use of wcleanAll in OpenFOAM-Extend easyconfigs, now handled by OpenFOAM easyblock (#5131)
   - also install run_rcorrector.pl with Rcorrector (#5135)
   - add SHA256 checksum to PyCUDA easyconfig (#5154)
   - fix/improve description in HDF5 easyconfigs (#5182)
@@ -1045,7 +1094,7 @@ feature release
 - added easyconfigs for foss/2017a and intel/2017a common toolchains (#3968, #3969)
 - added example easyconfig files for 16 new software packages:
   - ack (#3983), cclib (#4065), ConnectomeWorkbench (#3411), GroIMP (#3994), hyperspy (#3991), I-TASSER (#1216),
-    ImageJ (#4023, #4062), libconfig (#4051), libspatialindex (#4002), mahotas (#3990), Minia (#3949), muParser (#4007), 
+    ImageJ (#4023, #4062), libconfig (#4051), libspatialindex (#4002), mahotas (#3990), Minia (#3949), muParser (#4007),
     NetLogo (#3941), QIIME (#3868), QwtPolar (#4019), Tensorflow (#4084, #4095)
 - added additional easyconfigs for various supported software packages, including:
   - Boost 1.62.0 + 1.63.0, CP2K 4.1, GSL 2.3, PLUMED 2.3.0, Qt5 5.7.1, WRF 3.8, WPS 3.8, Yade 2016.06a, zlib 1.2.11

setup.py

@@ -44,7 +44,7 @@
 # recent setuptools versions will *TRANSFORM* something like 'X.Y.Zdev' into 'X.Y.Z.dev0', with a warning like
 #   UserWarning: Normalizing '2.4.0dev' to '2.4.0.dev0'
 # This causes problems further up the dependency chain...
-VERSION = '4.0.1.dev0'
+VERSION = '4.0.2.dev0'
 
 MAJ_VER = VERSION.split('.')[0]
 MAJMIN_VER = '.'.join(VERSION.split('.')[0:2])