diff --git a/smoke_test/application_report b/smoke_test/application_report
new file mode 100755
index 0000000000000000000000000000000000000000..e27e34f4d98c88ab16f65c654bd53a82b888218e
--- /dev/null
+++ b/smoke_test/application_report
@@ -0,0 +1,17 @@
+#!/bin/bash
+
+# Generate report for applications that are to be deprecated
+name=$1
+ver=$2
+report=./${name}_${ver}.txt
+echo 'module logging stat: ' > $report
+./usage_stat $name $ver 2>&1 | tee -a $report
+echo '' >> $report
+echo 'softwares that depend on '$name/$ver >> $report
+./listdeps $name $ver
+cat $name/$ver >> $report
+rm $name/$ver
+rmdir $name
+
+
+
diff --git a/smoke_test/generate_bin_test b/smoke_test/generate_bin_test
index bea00e262fe6797abde82b32464c69ec43aaf643..9dbeb56c36abd2aaa24128c5bc3ec92aa997ea53 100755
--- a/smoke_test/generate_bin_test
+++ b/smoke_test/generate_bin_test
@@ -12,11 +12,12 @@ echo '#!/bin/bash
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
' > $TESTCASE_DIR/bintest
IFS_orig=$IFS
diff --git a/smoke_test/listdeps b/smoke_test/listdeps
index 7f1d74d17cd4e8d683edbd21fcad229176f528e3..06394baaa13821298ca2d5d74a03b29835de93f0 100755
--- a/smoke_test/listdeps
+++ b/smoke_test/listdeps
@@ -11,18 +11,18 @@ if [ -z $1 ]; then
fi
version=$2
-if [ -z $version ]; then
- version=( $(ls /usr/local/Modules/modulefiles/$software) )
-else
+if [ ${version+_} ]; then
version=( $version )
+else
+ version=( $(ls /usr/local/Modules/modulefiles/$software) )
fi
mkdir -p $software
-for i in $version; do touch $software/$ver; done
+for ver in $version; do touch $software/$ver; done
for i in $(ls -d /usr/local/*/); do
name=$(basename $i)
load_ver=$(module show $name 2>&1 | sed -n "s/module.*load\ ${software}\/\(.*\)/\1/p")
- if [ ! -z $load_ver ]; then
+ if [ ! -z $load_ver ] && [ -f $software/$load_ver ]; then
echo $name >> $software/$load_ver
fi
done
diff --git a/smoke_test/openmpi_1.10.7-mlx.txt b/smoke_test/openmpi_1.10.7-mlx.txt
new file mode 100644
index 0000000000000000000000000000000000000000..bc1d20d882bafd0d568047659d43a57fc3af1d01
--- /dev/null
+++ b/smoke_test/openmpi_1.10.7-mlx.txt
@@ -0,0 +1,251 @@
+module logging stat:
+bsun --- 3
+mvelasqu --- 16
+vidurt --- 1
+bmoffat --- 1
+ipincus --- 5
+dlee0035 --- 2
+sheikhug --- 8
+michaelr --- 9
+besser --- 2
+ldipnall --- 26
+aand0008 --- 7
+xvuthith --- 3
+vlbal1 --- 2
+smichnow --- 38
+asan0008 --- 16
+cpen0001 --- 4
+jmobbs --- 7
+pmace --- 7
+yzhang1 --- 35
+arthp --- 4
+scohen1 --- 4
+ska565 --- 6
+willk --- 16
+sgaj0003 --- 1
+govindap1 --- 6
+muckelma --- 12
+yannyinc --- 1
+pt5684 --- 1
+fairuzhh --- 2
+mbernhar --- 3
+yyue --- 1
+kwong --- 11
+phoebeimms --- 16
+jjn696 --- 12
+esomayeh --- 2
+huiw --- 17
+jinmingz --- 2
+ljia110 --- 1
+yfujii --- 7
+sarahsyh --- 5
+brianc --- 5
+pzaremoo --- 4
+bm571 --- 12
+wcao0006 --- 1
+nandiv --- 23
+kirkn --- 2
+chalmers --- 10
+gmeric --- 1
+rbeare --- 1
+dduke --- 8
+swatts --- 1
+andrewc --- 2
+bche132 --- 7
+mervyns --- 29
+aher0013 --- 2
+pleu0005 --- 4
+mbelouso --- 14
+amehnert --- 2
+training32 --- 1
+lwan0025 --- 3
+tomy --- 2
+jianc --- 8
+mwaltham --- 2
+hengr --- 2
+klow12 --- 40
+peterl --- 1
+dsubedi --- 7
+aper0034 --- 11
+cbritto --- 3
+philipc --- 10
+gfullers --- 1
+zhiqianx --- 7
+phalat --- 2
+changt --- 1
+eyk --- 1
+dmpar7 --- 7
+zdyson --- 24
+vpam0001 --- 2
+skie0002 --- 6
+rfro0003 --- 4
+yyer0001 --- 3
+ekan0003 --- 5
+bgully --- 14
+drob0006 --- 2
+a1058400 --- 8
+nmacesic --- 1
+dillonf --- 1
+ctiw0001 --- 3
+asin124 --- 2
+zhuy --- 1
+gahun3 --- 1
+eeka0002 --- 1
+hata0001 --- 2
+njcol7 --- 4
+angu0022 --- 3
+kira0001 --- 2
+jingl --- 4
+mjavaid --- 7
+training39 --- 1
+samjad --- 9
+rwic0002 --- 16
+zseeger --- 12
+tercy004 --- 15
+amaligg --- 2
+rjoh0016 --- 11
+louisec1 --- 2
+bmajor --- 1
+rgomi --- 10
+creboul --- 3
+osoriogarcia --- 2
+tnewing --- 17
+hven0001 --- 15
+sgwe0001 --- 6
+fboo0001 --- 3
+kholt --- 18
+lper0012 --- 4
+wwarnaku --- 3
+amire --- 1
+petersen --- 9
+yoge0001 --- 39
+snzai1 --- 1
+damienl --- 13
+lzhang --- 7
+jodib --- 3
+zmaa0010 --- 2
+shibow --- 2
+storestar2 --- 2
+land --- 2
+spiper --- 16
+siewpang --- 1
+root --- 20
+mlam0012 --- 20
+lancew --- 1
+hbhukya1 --- 1
+evelynd --- 2
+szhong --- 10
+mold0001 --- 6
+galisa --- 10
+apradhan --- 7
+rkai0001 --- 7
+jafarl --- 13
+kdainty --- 2
+yji --- 2
+hayleyjm --- 2
+seyedm --- 1
+trsma2 --- 4
+mhpre2 --- 1
+ctan --- 1
+ktran --- 2
+uqnyate1 --- 1
+jzhou --- 2
+joshuamhardy --- 9
+nickr --- 18
+jueqingl --- 3
+training29 --- 20
+claudiak --- 4
+pab07 --- 2
+aafo0001 --- 4
+kcorbett --- 5
+mfarrell --- 1
+ssoman --- 2
+hhartono --- 1
+billyjow --- 2
+simonb --- 5
+ljf509 --- 2
+scamp --- 1
+tday0002 --- 11
+louisec --- 5
+yqiu0012 --- 2
+tmalcolm --- 9
+sergiys --- 1
+kwyr0001 --- 26
+mhan0035 --- 2
+debopris --- 1
+jinxinz --- 1
+mkam0016 --- 2
+jdomingu --- 7
+bluc0001 --- 1
+bharwood --- 2
+xzha0043 --- 6
+marionb --- 4
+trungn --- 2
+gmonahan --- 1
+ctan1 --- 3
+ctav0001 --- 24
+grayminl --- 1
+ganjq --- 7
+pdaniel --- 1
+ademarco --- 1
+djov5 --- 2
+andrewpe --- 1
+msch0014 --- 14
+jaszczur --- 5
+msuman --- 12
+mwilce --- 3
+xjia0032 --- 2
+slandry --- 4
+rgom0001 --- 9
+bseewoo --- 1
+scottk --- 3
+pthomson --- 38
+uman0002 --- 3
+luhanc --- 117
+kamul4 --- 8
+abdellaa --- 13
+icostello --- 1
+clementeadam --- 7
+mdimmock --- 7
+davide --- 4
+tmason1 --- 4
+jcao0011 --- 26
+jhawkey --- 32
+handreas --- 7
+hcot0002 --- 9
+morrisa --- 1
+nmar0003 --- 3
+dbw --- 2
+zqi1 --- 8
+ec2-user --- 4
+jvanschy --- 15
+halmana --- 7
+dthal --- 21
+clau --- 8
+abhilass --- 5
+Total 1627 use in past 180 days
+
+softwares that depend on openmpi/1.10.7-mlx
+abinit
+chimera
+cp2k
+cpmd
+dense3dcrf
+exciting
+gamess
+geant4
+gromacs
+hypre
+lammps
+mpifileutils
+namd
+openfoam
+otpo
+petsc
+plumed
+rings
+rosetta
+scipion
+suitesparse
+vasp
+zoltan
diff --git a/smoke_test/output_dir/anaconda/2019.03-Python3.7-gcc5 b/smoke_test/output_dir/anaconda/2019.03-Python3.7-gcc5
index 8b137891791fe96927ad78e64b0aad7bded08bdc..e305cc105fa5c082b278a9989d5a5d7debe7c0a3 100644
--- a/smoke_test/output_dir/anaconda/2019.03-Python3.7-gcc5
+++ b/smoke_test/output_dir/anaconda/2019.03-Python3.7-gcc5
@@ -1 +1,277 @@
-
+# packages in environment at /usr/local/anaconda/2019.03-Python3.7-gcc5:
+#
+# Name Version Build Channel
+_ipyw_jlab_nb_ext_conf 0.1.0 py37_0
+alabaster 0.7.12 py37_0
+anaconda 2019.03 py37_0
+anaconda-client 1.7.2 py37_0
+anaconda-navigator 1.9.7 py37_0
+anaconda-project 0.8.2 py37_0
+asn1crypto 0.24.0 py37_0
+astroid 2.2.5 py37_0
+astropy 3.1.2 py37h7b6447c_0
+atomicwrites 1.3.0 py37_1
+attrs 19.1.0 py37_1
+babel 2.6.0 py37_0
+backcall 0.1.0 py37_0
+backports 1.0 py37_1
+backports.os 0.1.1 py37_0
+backports.shutil_get_terminal_size 1.0.0 py37_2
+beautifulsoup4 4.7.1 py37_1
+bitarray 0.8.3 py37h14c3975_0
+bkcharts 0.2 py37_0
+blas 1.0 mkl
+bleach 3.1.0 py37_0
+blosc 1.15.0 hd408876_0
+bokeh 1.0.4 py37_0
+boto 2.49.0 py37_0
+bottleneck 1.2.1 py37h035aef0_1
+bzip2 1.0.6 h14c3975_5
+ca-certificates 2019.1.23 0
+cairo 1.14.12 h8948797_3
+certifi 2019.3.9 py37_0
+cffi 1.12.2 py37h2e261b9_1
+chardet 3.0.4 py37_1
+click 7.0 py37_0
+cloudpickle 0.8.0 py37_0
+clyent 1.2.2 py37_1
+colorama 0.4.1 py37_0
+conda 4.6.12 py37_1
+conda-build 3.17.8 py37_0
+conda-env 2.6.0 1
+conda-verify 3.1.1 py37_0
+contextlib2 0.5.5 py37_0
+cryptography 2.6.1 py37h1ba5d50_0
+curl 7.64.0 hbc83047_2
+cycler 0.10.0 py37_0
+cython 0.29.6 py37he6710b0_0
+cytoolz 0.9.0.1 py37h14c3975_1
+dask 1.1.4 py37_1
+dask-core 1.1.4 py37_1
+dbus 1.13.6 h746ee38_0
+decorator 4.4.0 py37_1
+defusedxml 0.5.0 py37_1
+distributed 1.26.0 py37_1
+docutils 0.14 py37_0
+entrypoints 0.3 py37_0
+et_xmlfile 1.0.1 py37_0
+expat 2.2.6 he6710b0_0
+fastcache 1.0.2 py37h14c3975_2
+filelock 3.0.10 py37_0
+flask 1.0.2 py37_1
+fontconfig 2.13.0 h9420a91_0
+freetype 2.9.1 h8a8886c_1
+fribidi 1.0.5 h7b6447c_0
+future 0.17.1 py37_0
+get_terminal_size 1.0.0 haa9412d_0
+gevent 1.4.0 py37h7b6447c_0
+glib 2.56.2 hd408876_0
+glob2 0.6 py37_1
+gmp 6.1.2 h6c8ec71_1
+gmpy2 2.0.8 py37h10f8cd9_2
+graphite2 1.3.13 h23475e2_0
+greenlet 0.4.15 py37h7b6447c_0
+gst-plugins-base 1.14.0 hbbd80ab_1
+gstreamer 1.14.0 hb453b48_1
+h5py 2.9.0 py37h7918eee_0
+harfbuzz 1.8.8 hffaf4a1_0
+hdf5 1.10.4 hb1b8bf9_0
+heapdict 1.0.0 py37_2
+html5lib 1.0.1 py37_0
+icu 58.2 h9c2bf20_1
+idna 2.8 py37_0
+imageio 2.5.0 py37_0
+imagesize 1.1.0 py37_0
+importlib_metadata 0.8 py37_0
+intel-openmp 2019.3 199
+ipykernel 5.1.0 py37h39e3cac_0
+ipython 7.4.0 py37h39e3cac_0
+ipython_genutils 0.2.0 py37_0
+ipywidgets 7.4.2 py37_0
+isort 4.3.16 py37_0
+itsdangerous 1.1.0 py37_0
+jbig 2.1 hdba287a_0
+jdcal 1.4 py37_0
+jedi 0.13.3 py37_0
+jeepney 0.4 py37_0
+jinja2 2.10 py37_0
+jpeg 9b h024ee3a_2
+jsonschema 3.0.1 py37_0
+jupyter 1.0.0 py37_7
+jupyter_client 5.2.4 py37_0
+jupyter_console 6.0.0 py37_0
+jupyter_core 4.4.0 py37_0
+jupyterlab 0.35.4 py37hf63ae98_0
+jupyterlab_server 0.2.0 py37_0
+keyring 18.0.0 py37_0
+kiwisolver 1.0.1 py37hf484d3e_0
+krb5 1.16.1 h173b8e3_7
+lazy-object-proxy 1.3.1 py37h14c3975_2
+libarchive 3.3.3 h5d8350f_5
+libcurl 7.64.0 h20c2e04_2
+libedit 3.1.20181209 hc058e9b_0
+libffi 3.2.1 hd88cf55_4
+libgcc-ng 8.2.0 hdf63c60_1
+libgfortran-ng 7.3.0 hdf63c60_0
+liblief 0.9.0 h7725739_2
+libpng 1.6.36 hbc83047_0
+libsodium 1.0.16 h1bed415_0
+libssh2 1.8.0 h1ba5d50_4
+libstdcxx-ng 8.2.0 hdf63c60_1
+libtiff 4.0.10 h2733197_2
+libtool 2.4.6 h7b6447c_5
+libuuid 1.0.3 h1bed415_2
+libxcb 1.13 h1bed415_1
+libxml2 2.9.9 he19cac6_0
+libxslt 1.1.33 h7d1a2b0_0
+llvmlite 0.28.0 py37hd408876_0
+locket 0.2.0 py37_1
+lxml 4.3.2 py37hefd8a0e_0
+lz4-c 1.8.1.2 h14c3975_0
+lzo 2.10 h49e0be7_2
+markupsafe 1.1.1 py37h7b6447c_0
+matplotlib 3.0.3 py37h5429711_0
+mccabe 0.6.1 py37_1
+mistune 0.8.4 py37h7b6447c_0
+mkl 2019.3 199
+mkl-service 1.1.2 py37he904b0f_5
+mkl_fft 1.0.10 py37ha843d7b_0
+mkl_random 1.0.2 py37hd81dba3_0
+more-itertools 6.0.0 py37_0
+mpc 1.1.0 h10f8cd9_1
+mpfr 4.0.1 hdf1c602_3
+mpmath 1.1.0 py37_0
+msgpack-python 0.6.1 py37hfd86e86_1
+multipledispatch 0.6.0 py37_0
+navigator-updater 0.2.1 py37_0
+nbconvert 5.4.1 py37_3
+nbformat 4.4.0 py37_0
+ncurses 6.1 he6710b0_1
+networkx 2.2 py37_1
+nltk 3.4 py37_1
+nose 1.3.7 py37_2
+notebook 5.7.8 py37_0
+numba 0.43.1 py37h962f231_0
+numexpr 2.6.9 py37h9e4a6bb_0
+numpy 1.16.2 py37h7e9f1db_0
+numpy-base 1.16.2 py37hde5b4d6_0
+numpydoc 0.8.0 py37_0
+olefile 0.46 py37_0
+openpyxl 2.6.1 py37_1
+openssl 1.1.1b h7b6447c_1
+packaging 19.0 py37_0
+pandas 0.24.2 py37he6710b0_0
+pandoc 2.2.3.2 0
+pandocfilters 1.4.2 py37_1
+pango 1.42.4 h049681c_0
+parso 0.3.4 py37_0
+partd 0.3.10 py37_1
+patchelf 0.9 he6710b0_3
+path.py 11.5.0 py37_0
+pathlib2 2.3.3 py37_0
+patsy 0.5.1 py37_0
+pcre 8.43 he6710b0_0
+pep8 1.7.1 py37_0
+pexpect 4.6.0 py37_0
+pickleshare 0.7.5 py37_0
+pillow 5.4.1 py37h34e0f95_0
+pip 19.0.3 py37_0
+pixman 0.38.0 h7b6447c_0
+pkginfo 1.5.0.1 py37_0
+pluggy 0.9.0 py37_0
+ply 3.11 py37_0
+prometheus_client 0.6.0 py37_0
+prompt_toolkit 2.0.9 py37_0
+psutil 5.6.1 py37h7b6447c_0
+ptyprocess 0.6.0 py37_0
+py 1.8.0 py37_0
+py-lief 0.9.0 py37h7725739_2
+pycodestyle 2.5.0 py37_0
+pycosat 0.6.3 py37h14c3975_0
+pycparser 2.19 py37_0
+pycrypto 2.6.1 py37h14c3975_9
+pycurl 7.43.0.2 py37h1ba5d50_0
+pyflakes 2.1.1 py37_0
+pygments 2.3.1 py37_0
+pylint 2.3.1 py37_0
+pyodbc 4.0.26 py37he6710b0_0
+pyopenssl 19.0.0 py37_0
+pyparsing 2.3.1 py37_0
+pyqt 5.9.2 py37h05f1152_2
+pyrsistent 0.14.11 py37h7b6447c_0
+pysocks 1.6.8 py37_0
+pytables 3.5.1 py37h71ec239_0
+pytest 4.3.1 py37_0
+pytest-arraydiff 0.3 py37h39e3cac_0
+pytest-astropy 0.5.0 py37_0
+pytest-doctestplus 0.3.0 py37_0
+pytest-openfiles 0.3.2 py37_0
+pytest-remotedata 0.3.1 py37_0
+python 3.7.3 h0371630_0
+python-dateutil 2.8.0 py37_0
+python-libarchive-c 2.8 py37_6
+pytz 2018.9 py37_0
+pywavelets 1.0.2 py37hdd07704_0
+pyyaml 5.1 py37h7b6447c_0
+pyzmq 18.0.0 py37he6710b0_0
+qt 5.9.7 h5867ecd_1
+qtawesome 0.5.7 py37_1
+qtconsole 4.4.3 py37_0
+qtpy 1.7.0 py37_1
+readline 7.0 h7b6447c_5
+requests 2.21.0 py37_0
+rope 0.12.0 py37_0
+ruamel_yaml 0.15.46 py37h14c3975_0
+scikit-image 0.14.2 py37he6710b0_0
+scikit-learn 0.20.3 py37hd81dba3_0
+scipy 1.2.1 py37h7c811a0_0
+seaborn 0.9.0 py37_0
+secretstorage 3.1.1 py37_0
+send2trash 1.5.0 py37_0
+setuptools 40.8.0 py37_0
+simplegeneric 0.8.1 py37_2
+singledispatch 3.4.0.3 py37_0
+sip 4.19.8 py37hf484d3e_0
+six 1.12.0 py37_0
+snappy 1.1.7 hbae5bb6_3
+snowballstemmer 1.2.1 py37_0
+sortedcollections 1.1.2 py37_0
+sortedcontainers 2.1.0 py37_0
+soupsieve 1.8 py37_0
+sphinx 1.8.5 py37_0
+sphinxcontrib 1.0 py37_1
+sphinxcontrib-websupport 1.1.0 py37_1
+spyder 3.3.3 py37_0
+spyder-kernels 0.4.2 py37_0
+sqlalchemy 1.3.1 py37h7b6447c_0
+sqlite 3.27.2 h7b6447c_0
+statsmodels 0.9.0 py37h035aef0_0
+sympy 1.3 py37_0
+tblib 1.3.2 py37_0
+terminado 0.8.1 py37_1
+testpath 0.4.2 py37_0
+tk 8.6.8 hbc83047_0
+toolz 0.9.0 py37_0
+tornado 6.0.2 py37h7b6447c_0
+tqdm 4.31.1 py37_1
+traitlets 4.3.2 py37_0
+unicodecsv 0.14.1 py37_0
+unixodbc 2.3.7 h14c3975_0
+urllib3 1.24.1 py37_0
+wcwidth 0.1.7 py37_0
+webencodings 0.5.1 py37_1
+werkzeug 0.14.1 py37_0
+wheel 0.33.1 py37_0
+widgetsnbextension 3.4.2 py37_0
+wrapt 1.11.1 py37h7b6447c_0
+wurlitzer 1.0.2 py37_0
+xlrd 1.2.0 py37_0
+xlsxwriter 1.1.5 py37_0
+xlwt 1.3.0 py37_0
+xz 5.2.4 h14c3975_4
+yaml 0.1.7 had09818_2
+zeromq 4.3.1 he6710b0_3
+zict 0.1.4 py37_0
+zipp 0.3.3 py37_1
+zlib 1.2.11 h7b6447c_3
+zstd 1.3.7 h0b5b093_0
diff --git a/smoke_test/output_dir/anaconda/5.1.0-Python3.6-gcc5 b/smoke_test/output_dir/anaconda/5.1.0-Python3.6-gcc5
index 8b137891791fe96927ad78e64b0aad7bded08bdc..b4c1419c77e5bf12af6c156cb3d24a2b7d480879 100644
--- a/smoke_test/output_dir/anaconda/5.1.0-Python3.6-gcc5
+++ b/smoke_test/output_dir/anaconda/5.1.0-Python3.6-gcc5
@@ -1 +1,266 @@
-
+# packages in environment at /usr/local/anaconda/5.1.0-Python3.6-gcc5:
+#
+# Name Version Build Channel
+_ipyw_jlab_nb_ext_conf 0.1.0 py36he11e457_0
+alabaster 0.7.10 py36h306e16b_0
+anaconda 5.1.0 py36_2
+anaconda-client 1.6.9 py36_0
+anaconda-navigator 1.7.0 py36_0
+anaconda-project 0.8.2 py36h44fb852_0
+apiclient 1.0.3 <pip>
+apptools 4.4.0 <pip>
+asn1crypto 0.24.0 py36_0
+astroid 1.6.1 py36_0
+astropy 2.0.3 py36h14c3975_0
+attrs 17.4.0 py36_0
+babel 2.5.3 py36_0
+backports 1.0 py36hfa02d7e_1
+backports.shutil_get_terminal_size 1.0.0 py36hfea85ff_2
+beautifulsoup4 4.6.0 py36h49b8c8c_1
+bitarray 0.8.1 py36h14c3975_1
+bkcharts 0.2 py36h735825a_0
+blaze 0.11.3 py36h4e06776_0
+bleach 2.1.2 py36_0
+bokeh 0.12.13 py36h2f9c1c0_0
+boto 2.48.0 py36h6e4cd66_1
+bottleneck 1.2.1 py36haac1ea0_0
+bzip2 1.0.6 h9a117a8_4
+ca-certificates 2017.08.26 h1d4fec5_0
+cairo 1.14.12 h77bcde2_0
+certifi 2018.1.18 py36_0 conda-forge
+cffi 1.11.4 py36h9745a5d_0
+chardet 3.0.4 py36h0f667ec_1
+click 6.7 py36h5253387_0
+cloudpickle 0.5.2 py36_1
+clyent 1.2.2 py36h7e57e65_1
+colorama 0.3.9 py36h489cec4_0
+conda 4.5.4 py36_0 conda-forge
+conda-build 3.4.1 py36_0
+conda-env 2.6.0 h36134e3_1
+conda-verify 2.0.0 py36h98955d8_0
+configobj 5.0.6 <pip>
+contextlib2 0.5.5 py36h6c84a62_0
+cryptography 2.1.4 py36hd09be54_0
+curl 7.58.0 h84994c4_0
+cycler 0.10.0 py36h93f1223_0
+cython 0.27.3 py36h1860423_0
+cytoolz 0.9.0 py36h14c3975_0
+dask 0.16.1 py36_0
+dask-core 0.16.1 py36_0
+datashape 0.5.4 py36h3ad6b5c_0
+dbus 1.12.2 hc3f9b76_1
+decorator 4.2.1 py36_0
+distributed 1.20.2 py36_0
+docutils 0.14 py36hb0f60f5_0
+entrypoints 0.2.3 py36h1aec115_2
+et_xmlfile 1.0.1 py36hd6bccc3_0
+expat 2.2.5 he0dffb1_0
+fastcache 1.0.2 py36h14c3975_2
+filelock 2.0.13 py36h646ffb5_0
+flask 0.12.2 py36hb24657c_0
+flask-cors 3.0.3 py36h2d857d3_0
+fontconfig 2.12.4 h88586e7_1
+freetype 2.8 hab7d2ae_1
+get_terminal_size 1.0.0 haa9412d_0
+gevent 1.2.2 py36h2fe25dc_0
+glib 2.53.6 h5d9569c_2
+glob2 0.6 py36he249c77_0
+gmp 6.1.2 h6c8ec71_1
+gmpy2 2.0.8 py36hc8893dd_2
+graphite2 1.3.10 hf63cedd_1
+greenlet 0.4.12 py36h2d503a6_0
+gst-plugins-base 1.12.4 h33fb286_0
+gstreamer 1.12.4 hb53b477_0
+h5py 2.7.1 py36h3585f63_0
+harfbuzz 1.7.4 hc5b324e_0
+hdf5 1.10.1 h9caa474_1
+heapdict 1.0.0 py36_2
+html5lib 1.0.1 py36h2f9c1c0_0
+httplib2 0.11.3 <pip>
+icu 58.2 h9c2bf20_1
+idna 2.6 py36h82fb2a8_1
+imageio 2.2.0 py36he555465_0
+imagesize 0.7.1 py36h52d8127_0
+intel-openmp 2018.0.0 hc7b2577_8
+ipykernel 4.8.0 py36_0
+ipython 6.2.1 py36h88c514a_1
+ipython_genutils 0.2.0 py36hb52b0d5_0
+ipywidgets 7.1.1 py36_0
+isort 4.2.15 py36had401c0_0
+itsdangerous 0.24 py36h93cc618_1
+jbig 2.1 hdba287a_0
+jdcal 1.3 py36h4c697fb_0
+jedi 0.11.1 py36_0
+jinja2 2.10 py36ha16c418_0
+jpeg 9b h024ee3a_2
+jsonschema 2.6.0 py36h006f8b5_0
+jupyter 1.0.0 py36_4
+jupyter_client 5.2.2 py36_0
+jupyter_console 5.2.0 py36he59e554_1
+jupyter_core 4.4.0 py36h7c827e3_0
+jupyterlab 0.31.5 py36_0
+jupyterlab_launcher 0.10.2 py36_0
+lazy-object-proxy 1.3.1 py36h10fcdad_0
+ldap3 2.5 <pip>
+libcurl 7.58.0 h1ad7b7a_0
+libedit 3.1 heed3624_0
+libffi 3.2.1 hd88cf55_4
+libgcc-ng 7.2.0 h7cc24e2_2
+libgfortran-ng 7.2.0 h9f7466a_2
+libpng 1.6.34 hb9fc6fc_0
+libsodium 1.0.15 hf101ebd_0
+libssh2 1.8.0 h9cfc8f7_4
+libstdcxx-ng 7.2.0 h7a57d05_2
+libtiff 4.0.9 h28f6b97_0
+libtool 2.4.6 h544aabb_3
+libxcb 1.12 hcd93eb1_4
+libxml2 2.9.7 h26e45fe_0
+libxslt 1.1.32 h1312cb7_0
+llvmlite 0.21.0 py36ha241eea_0
+locket 0.2.0 py36h787c0ad_1
+lxml 4.1.1 py36hf71bdeb_1
+lzo 2.10 h49e0be7_2
+manageid 0.0.1 <pip>
+markupsafe 1.0 py36hd9260cd_1
+matplotlib 2.1.2 py36h0e671d2_0
+mccabe 0.6.1 py36h5ad9710_1
+mistune 0.8.3 py36_0
+mkl 2018.0.1 h19d6760_4
+mkl-service 1.1.2 py36h17a0993_4
+mne 0.15.2 <pip>
+mpc 1.0.3 hec55b23_5
+mpfr 3.1.5 h11a74b3_2
+mpmath 1.0.0 py36hfeacd6b_2
+msgpack-python 0.5.1 py36h6bb024c_0
+multipledispatch 0.4.9 py36h41da3fb_0
+navigator-updater 0.1.0 py36h14770f7_0
+nbconvert 5.3.1 py36hb41ffb7_0
+nbformat 4.4.0 py36h31c9010_0
+ncurses 6.0 h9df7e31_2
+neo 0.6.1 <pip>
+networkx 2.1 py36_0
+nibabel 2.2.1 <pip>
+nilearn 0.4.1 <pip>
+nitime 0.7 <pip>
+nltk 3.2.5 py36h7532b22_0
+nose 1.3.7 py36hcdf7029_2
+notebook 5.4.0 py36_0
+numba 0.36.2 np114py36hc6662d5_0
+numexpr 2.6.4 py36hc4a3f9a_0
+numpy 1.14.0 py36h3dfced4_1
+numpydoc 0.7.0 py36h18f165f_0
+odo 0.5.1 py36h90ed295_0
+olefile 0.45.1 py36_0
+openpyxl 2.4.10 py36_0
+openssl 1.0.2n hb7f436b_0
+packaging 16.8 py36ha668100_1
+pandas 0.22.0 py36hf484d3e_0
+pandoc 1.19.2.1 hea2e7c5_1
+pandocfilters 1.4.2 py36ha6701b7_1
+pango 1.41.0 hd475d92_0
+parso 0.1.1 py36h35f843b_0
+partd 0.3.8 py36h36fd896_0
+patchelf 0.9 hf79760b_2
+path.py 10.5 py36h55ceabb_0
+pathlib2 2.3.0 py36h49efa8e_0
+patsy 0.5.0 py36_0
+pcre 8.41 hc27e229_1
+pep8 1.7.1 py36_0
+pexpect 4.3.1 py36_0
+pickleshare 0.7.4 py36h63277f8_0
+pillow 5.0.0 py36h3deb7b8_0
+pip 9.0.1 py36h6c6f9ce_4
+pixman 0.34.0 hceecf20_3
+pkginfo 1.4.1 py36h215d178_1
+pluggy 0.6.0 py36hb689045_0
+ply 3.10 py36hed35086_0
+prompt_toolkit 1.0.15 py36h17d85b1_0
+psutil 5.4.3 py36h14c3975_0
+ptyprocess 0.5.2 py36h69acd42_0
+py 1.5.2 py36h29bf505_0
+pyasn1 0.4.2 <pip>
+pycodestyle 2.3.1 py36hf609f19_0
+pycosat 0.6.3 py36h0a5515d_0
+pycparser 2.18 py36hf9f622e_1
+pycrypto 2.6.1 py36h14c3975_7
+pycurl 7.43.0.1 py36hb7f436b_0
+pydocstyle 2.1.1 <pip>
+pyface 5.2.0.dev0.dev0 <pip>
+pyflakes 1.6.0 py36h7bd6a15_0
+pygments 2.2.0 py36h0d3125c_0
+pylint 1.8.2 py36_0
+pyodbc 4.0.22 py36hf484d3e_0
+pyopenssl 17.5.0 py36h20ba746_0
+pyparsing 2.2.0 py36hee85983_1
+pyqt 5.6.0 py36h0386399_5
+pysocks 1.6.7 py36hd97a5b1_1
+pytables 3.4.2 py36h3b5282a_2
+pytest 3.3.2 py36_0
+pytest-faulthandler 1.5.0 <pip>
+pytest-sugar 0.9.1 <pip>
+python 3.6.4 hc3d631a_1
+python-dateutil 2.6.1 py36h88d3b88_1
+python-picard 0.3 <pip>
+pytz 2017.3 py36h63b9c63_0
+pywavelets 0.5.2 py36he602eb0_0
+pyyaml 3.12 py36hafb9ca4_1
+pyzmq 16.0.3 py36he2533c7_0
+qt 5.6.2 h974d657_12
+qtawesome 0.4.4 py36h609ed8c_0
+qtconsole 4.3.1 py36h8f73b5b_0
+qtpy 1.3.1 py36h3691cc8_0
+quantities 0.12.1 <pip>
+readline 7.0 ha6073c6_4
+requests 2.18.4 py36he2e5f8d_1
+rope 0.10.7 py36h147e2ec_0
+ruamel_yaml 0.15.35 py36h14c3975_1
+scikit-image 0.13.1 py36h14c3975_1
+scikit-learn 0.19.1 py36h7aa7ec6_0
+scipy 1.0.0 py36hbf646e7_0
+seaborn 0.8.1 py36hfad7ec4_0
+send2trash 1.4.2 py36_0
+setuptools 38.4.0 py36_0
+simplegeneric 0.8.1 py36_2
+singledispatch 3.4.0.3 py36h7a266c3_0
+sip 4.18.1 py36h51ed4ed_2
+six 1.11.0 py36h372c433_1
+snowballstemmer 1.2.1 py36h6febd40_0
+sortedcollections 0.5.3 py36h3c761f9_0
+sortedcontainers 1.5.9 py36_0
+sphinx 1.6.6 py36_0
+sphinx-bootstrap-theme 0.6.4 <pip>
+sphinxcontrib 1.0 py36h6d0f590_1
+sphinxcontrib-websupport 1.0.1 py36hb5cb234_1
+spyder 3.2.6 py36_0
+sqlalchemy 1.2.1 py36h14c3975_0
+sqlite 3.22.0 h1bed415_0
+statsmodels 0.8.0 py36h8533d0b_0
+sympy 1.1.1 py36hc6d1c1c_0
+tblib 1.3.2 py36h34cf8b6_0
+termcolor 1.1.0 <pip>
+terminado 0.8.1 py36_1
+testpath 0.3.1 py36h8cadb63_0
+tk 8.6.7 hc745277_3
+toolz 0.9.0 py36_0
+tornado 4.5.3 py36_0
+traitlets 4.3.2 py36h674d592_0
+traits 4.7.0.dev0 <pip>
+traitsui 5.2.0.dev0 <pip>
+typing 3.6.2 py36h7da032a_0
+unicodecsv 0.14.1 py36ha668878_0
+unixodbc 2.3.4 hc36303a_1
+urllib3 1.22 py36hbe7ace6_0
+wcwidth 0.1.7 py36hdf4376a_0
+webencodings 0.5.1 py36h800622e_1
+werkzeug 0.14.1 py36_0
+wheel 0.30.0 py36hfd4bba0_1
+widgetsnbextension 3.1.0 py36_0
+wrapt 1.10.11 py36h28b7045_0
+xlrd 1.1.0 py36h1db9f0c_1
+xlsxwriter 1.0.2 py36h3de1aca_0
+xlwt 1.3.0 py36h7b00a1f_0
+xz 5.2.3 h55aa19d_2
+yaml 0.1.7 had09818_2
+zeromq 4.2.2 hbedb6e5_2
+zict 0.1.3 py36h3a3bf81_0
+zlib 1.2.11 ha838bed_2
diff --git a/smoke_test/output_dir/cuda/10.1 b/smoke_test/output_dir/cuda/10.1
index 8b137891791fe96927ad78e64b0aad7bded08bdc..4190107fc989b38eb0655781a015290d292f2231 100644
--- a/smoke_test/output_dir/cuda/10.1
+++ b/smoke_test/output_dir/cuda/10.1
@@ -1 +1,17 @@
+nvcc: NVIDIA (R) Cuda compiler driver
+Copyright (c) 2005-2019 NVIDIA Corporation
+Built on Fri_Feb__8_19:08:17_PST_2019
+Cuda compilation tools, release 10.1, V10.1.105
+deviceQuery Starting...
+ CUDA Device Query (Runtime API) version (CUDART static linking)
+
+cudaGetDeviceCount returned 35
+-> CUDA driver version is insufficient for CUDA runtime version
+Result = FAIL
+CUDA error at bandwidthTest.cu:242 code=35(cudaErrorInsufficientDriver) "cudaSetDevice(currentDevice)"
+[CUDA Bandwidth Test] - Starting...
+Running on...
+
+cudaGetDeviceProperties returned 35
+-> CUDA driver version is insufficient for CUDA runtime version
diff --git a/smoke_test/output_dir/cuda/7.5 b/smoke_test/output_dir/cuda/7.5
index 8b137891791fe96927ad78e64b0aad7bded08bdc..91d5b8d810df82bf2f83fd2b40e404cf9092b2bb 100644
--- a/smoke_test/output_dir/cuda/7.5
+++ b/smoke_test/output_dir/cuda/7.5
@@ -1 +1,17 @@
+nvcc: NVIDIA (R) Cuda compiler driver
+Copyright (c) 2005-2015 NVIDIA Corporation
+Built on Tue_Aug_11_14:27:32_CDT_2015
+Cuda compilation tools, release 7.5, V7.5.17
+deviceQuery Starting...
+ CUDA Device Query (Runtime API) version (CUDART static linking)
+
+cudaGetDeviceCount returned 35
+-> CUDA driver version is insufficient for CUDA runtime version
+Result = FAIL
+CUDA error at bandwidthTest.cu:255 code=35(cudaErrorInsufficientDriver) "cudaSetDevice(currentDevice)"
+[CUDA Bandwidth Test] - Starting...
+Running on...
+
+cudaGetDeviceProperties returned 35
+-> CUDA driver version is insufficient for CUDA runtime version
diff --git a/smoke_test/output_dir/cuda/8.0.61 b/smoke_test/output_dir/cuda/8.0.61
index 8b137891791fe96927ad78e64b0aad7bded08bdc..e8af40350042b7dc465be64727c94fb568668ca6 100644
--- a/smoke_test/output_dir/cuda/8.0.61
+++ b/smoke_test/output_dir/cuda/8.0.61
@@ -1 +1,17 @@
+nvcc: NVIDIA (R) Cuda compiler driver
+Copyright (c) 2005-2016 NVIDIA Corporation
+Built on Tue_Jan_10_13:22:03_CST_2017
+Cuda compilation tools, release 8.0, V8.0.61
+deviceQuery Starting...
+ CUDA Device Query (Runtime API) version (CUDART static linking)
+
+cudaGetDeviceCount returned 35
+-> CUDA driver version is insufficient for CUDA runtime version
+Result = FAIL
+CUDA error at bandwidthTest.cu:242 code=35(cudaErrorInsufficientDriver) "cudaSetDevice(currentDevice)"
+[CUDA Bandwidth Test] - Starting...
+Running on...
+
+cudaGetDeviceProperties returned 35
+-> CUDA driver version is insufficient for CUDA runtime version
diff --git a/smoke_test/output_dir/cuda/9.1 b/smoke_test/output_dir/cuda/9.1
index 8b137891791fe96927ad78e64b0aad7bded08bdc..92a5ddaaa42d9dc3a7e77648a391b23aff243873 100644
--- a/smoke_test/output_dir/cuda/9.1
+++ b/smoke_test/output_dir/cuda/9.1
@@ -1 +1,12 @@
+nvcc: NVIDIA (R) Cuda compiler driver
+Copyright (c) 2005-2017 NVIDIA Corporation
+Built on Fri_Nov__3_21:07:56_CDT_2017
+Cuda compilation tools, release 9.1, V9.1.85
+deviceQuery Starting...
+ CUDA Device Query (Runtime API) version (CUDART static linking)
+
+cudaGetDeviceCount returned 35
+-> CUDA driver version is insufficient for CUDA runtime version
+Result = FAIL
+./tests/cuda/bashcmd: line 4: bandwidthTest: command not found
diff --git a/smoke_test/output_dir/fftw/3.3.4-gcc b/smoke_test/output_dir/fftw/3.3.4-gcc
index 8b137891791fe96927ad78e64b0aad7bded08bdc..e51f1a9ea1ceb1d0695063a1a53ba8bd4578c5b6 100644
--- a/smoke_test/output_dir/fftw/3.3.4-gcc
+++ b/smoke_test/output_dir/fftw/3.3.4-gcc
@@ -1 +1,3 @@
-
+gcc: error: fftw_example.c: No such file or directory
+./tests/fftw/bashcmd: line 3: ./fftw_example: No such file or directory
+rm: cannot remove ‘fftw_example’: No such file or directory
diff --git a/smoke_test/output_dir/fftw/3.3.5-gcc b/smoke_test/output_dir/fftw/3.3.5-gcc
index 8b137891791fe96927ad78e64b0aad7bded08bdc..e51f1a9ea1ceb1d0695063a1a53ba8bd4578c5b6 100644
--- a/smoke_test/output_dir/fftw/3.3.5-gcc
+++ b/smoke_test/output_dir/fftw/3.3.5-gcc
@@ -1 +1,3 @@
-
+gcc: error: fftw_example.c: No such file or directory
+./tests/fftw/bashcmd: line 3: ./fftw_example: No such file or directory
+rm: cannot remove ‘fftw_example’: No such file or directory
diff --git a/smoke_test/output_dir/fftw/3.3.5-gcc5 b/smoke_test/output_dir/fftw/3.3.5-gcc5
index 8b137891791fe96927ad78e64b0aad7bded08bdc..e51f1a9ea1ceb1d0695063a1a53ba8bd4578c5b6 100644
--- a/smoke_test/output_dir/fftw/3.3.5-gcc5
+++ b/smoke_test/output_dir/fftw/3.3.5-gcc5
@@ -1 +1,3 @@
-
+gcc: error: fftw_example.c: No such file or directory
+./tests/fftw/bashcmd: line 3: ./fftw_example: No such file or directory
+rm: cannot remove ‘fftw_example’: No such file or directory
diff --git a/smoke_test/output_dir/gmp/6.1.2 b/smoke_test/output_dir/gmp/6.1.2
index 8b137891791fe96927ad78e64b0aad7bded08bdc..7475f9f9207f0d540b4b6265419d0d2672e91e7c 100644
--- a/smoke_test/output_dir/gmp/6.1.2
+++ b/smoke_test/output_dir/gmp/6.1.2
@@ -1 +1,3 @@
-
+gcc: error: fact.c: No such file or directory
+./tests/gmp/bashcmd: line 3: ./fact: No such file or directory
+rm: cannot remove ‘fact’: No such file or directory
diff --git a/smoke_test/output_dir/hdf5/1.10.0-patch1 b/smoke_test/output_dir/hdf5/1.10.0-patch1
index d2a871504768ae75e15493f135cb5bf2f2046c72..b70a9c5b57c168cac49fe4b787ca2e3b697e69a2 100644
--- a/smoke_test/output_dir/hdf5/1.10.0-patch1
+++ b/smoke_test/output_dir/hdf5/1.10.0-patch1
@@ -1,24 +1,24 @@
-Usage: h5stat [OPTIONS] file
+--2020-07-27 15:11:14-- https://support.hdfgroup.org/ftp/HDF5/examples/examples-by-api/hdf5-examples.tar.gz
+Resolving support.hdfgroup.org (support.hdfgroup.org)... 50.28.50.143
+Connecting to support.hdfgroup.org (support.hdfgroup.org)|50.28.50.143|:443... connected.
+HTTP request sent, awaiting response... 200 OK
+Length: 606535 (592K) [application/x-gzip]
+Saving to: ‘hdf5-examples.tar.gz’
- OPTIONS
- -h, --help Print a usage message and exit
- -V, --version Print version number and exit
- -f, --file Print file information
- -F, --filemetadata Print file space information for file's metadata
- -g, --group Print group information
- -l N, --links=N Set the threshold for the # of links when printing
- information for small groups. N is an integer greater
- than 0. The default threshold is 10.
- -G, --groupmetadata Print file space information for groups' metadata
- -d, --dset Print dataset information
- -m N, --dims=N Set the threshold for the dimension sizes when printing
- information for small datasets. N is an integer greater
- than 0. The default threshold is 10.
- -D, --dsetmetadata Print file space information for datasets' metadata
- -T, --dtypemetadata Print datasets' datatype information
- -A, --attribute Print attribute information
- -a N, --numattrs=N Set the threshold for the # of attributes when printing
- information for small # of attributes. N is an integer greater
- than 0. The default threshold is 10.
- -s, --freespace Print free space information
- -S, --summary Print summary of file space information
+ 0K .......... .......... .......... .......... .......... 8% 111K 5s
+ 50K .......... .......... .......... .......... .......... 16% 111K 4s
+ 100K .......... .......... .......... .......... .......... 25% 20.5M 3s
+ 150K .......... .......... .......... .......... .......... 33% 221K 2s
+ 200K .......... .......... .......... .......... .......... 42% 222K 2s
+ 250K .......... .......... .......... .......... .......... 50% 222K 2s
+ 300K .......... .......... .......... .......... .......... 59% 14.8M 1s
+ 350K .......... .......... .......... .......... .......... 67% 222K 1s
+ 400K .......... .......... .......... .......... .......... 75% 221K 1s
+ 450K .......... .......... .......... .......... .......... 84% 222K 0s
+ 500K .......... .......... .......... .......... .......... 92% 222K 0s
+ 550K .......... .......... .......... .......... .. 100% 16.0M=2.5s
+
+2020-07-27 15:11:18 (238 KB/s) - ‘hdf5-examples.tar.gz’ saved [606535/606535]
+
+rm: cannot remove ‘hdf5-examples’: No such file or directory
+rm: cannot remove ‘hdf5-examples.tar.gz’: No such file or directory
diff --git a/smoke_test/output_dir/mpfr/3.1.5 b/smoke_test/output_dir/mpfr/3.1.5
index 8b137891791fe96927ad78e64b0aad7bded08bdc..3aafb24a5254c608684effd3e723f4b4186f40b7 100644
--- a/smoke_test/output_dir/mpfr/3.1.5
+++ b/smoke_test/output_dir/mpfr/3.1.5
@@ -1 +1,3 @@
-
+gcc: error: sample.c: No such file or directory
+./tests/mpfr/bashcmd: line 3: ./sample: No such file or directory
+rm: cannot remove ‘sample’: No such file or directory
diff --git a/smoke_test/output_dir/openblas/0.2.20 b/smoke_test/output_dir/openblas/0.2.20
index 8b137891791fe96927ad78e64b0aad7bded08bdc..c78d2314af71471ade5c2e039fb50ecacf3da86f 100644
--- a/smoke_test/output_dir/openblas/0.2.20
+++ b/smoke_test/output_dir/openblas/0.2.20
@@ -1 +1,6 @@
-
+gcc: error: test_cblas_dgemm.c: No such file or directory
+./tests/openblas/bashcmd: line 4: ./test_cblas_open: No such file or directory
+rm: cannot remove ‘test_cblas_open’: No such file or directory
+gcc: error: time_dgemm.c: No such file or directory
+./tests/openblas/bashcmd: line 7: ./time_dgemm: No such file or directory
+rm: cannot remove ‘time_dgemm’: No such file or directory
diff --git a/smoke_test/output_dir/openmpi/1.10.3-gcc4-mlx-verbs b/smoke_test/output_dir/openmpi/1.10.3-gcc4-mlx-verbs
index 24d134a75085af8d26ae5f8e29933fa77b5b67d1..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 100644
--- a/smoke_test/output_dir/openmpi/1.10.3-gcc4-mlx-verbs
+++ b/smoke_test/output_dir/openmpi/1.10.3-gcc4-mlx-verbs
@@ -1,12 +0,0 @@
-gcc (GCC) 4.9.3
-Copyright (C) 2015 Free Software Foundation, Inc.
-This is free software; see the source for copying conditions. There is NO
-warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
-
-mpirun (Open MPI) 1.10.3
-
-Report bugs to http://www.open-mpi.org/community/help/
-m3-login2
-m3-login2
-m3-login2
-m3-login2
diff --git a/smoke_test/output_dir/openmpi/1.10.7-mlx b/smoke_test/output_dir/openmpi/1.10.7-mlx
index d5146cdda01908e61c266ee57bfd3865fd44fc20..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 100644
--- a/smoke_test/output_dir/openmpi/1.10.7-mlx
+++ b/smoke_test/output_dir/openmpi/1.10.7-mlx
@@ -1,12 +0,0 @@
-gcc (GCC) 5.4.0
-Copyright (C) 2015 Free Software Foundation, Inc.
-This is free software; see the source for copying conditions. There is NO
-warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
-
-mpirun (Open MPI) 1.10.7
-
-Report bugs to http://www.open-mpi.org/community/help/
-m3-login2
-m3-login2
-m3-login2
-m3-login2
diff --git a/smoke_test/output_dir/report.txt b/smoke_test/output_dir/report.txt
index c6d76d8ac38f92e50ccf14900105d45c77fcdf0c..d8ee5d3cd50992fde776bf195fd97963b300ab94 100644
--- a/smoke_test/output_dir/report.txt
+++ b/smoke_test/output_dir/report.txt
@@ -2,8 +2,20 @@
libjpeg-turbo 1.4.2 return non-zero exitcode 1 for testcase ./tests/libjpeg-turbo/bashcmd
virtualgl 2.5.0 return non-zero exitcode 1 for testcase ./tests/virtualgl/bashcmd
tigervnc 1.8.0 return non-zero exitcode 1 for testcase ./tests/tigervnc/bashcmd
+openblas 0.2.20 return non-zero exitcode 1 for testcase ./tests/openblas/bashcmd
+fftw 3.3.5-gcc5 return non-zero exitcode 1 for testcase ./tests/fftw/bashcmd
+hdf5 1.10.0-patch1 return non-zero exitcode 1 for testcase ./tests/hdf5/bashcmd
+singularity 3.2.1 return non-zero exitcode 124 for testcase ./tests/singularity/bashcmd
+fftw 3.3.4-gcc return non-zero exitcode 1 for testcase ./tests/fftw/bashcmd
+fftw 3.3.5-gcc return non-zero exitcode 1 for testcase ./tests/fftw/bashcmd
+cuda 7.5 return non-zero exitcode 1 for testcase ./tests/cuda/bashcmd
+mpfr 3.1.5 return non-zero exitcode 1 for testcase ./tests/mpfr/bashcmd
+gmp 6.1.2 return non-zero exitcode 1 for testcase ./tests/gmp/bashcmd
+cuda 10.1 return non-zero exitcode 1 for testcase ./tests/cuda/bashcmd
+cuda 8.0.61 return non-zero exitcode 1 for testcase ./tests/cuda/bashcmd
+cuda 9.1 return non-zero exitcode 127 for testcase ./tests/cuda/bashcmd
Summary
-Failed: 3
-Success 10
+Failed: 15
+Success 7
No tests found: 0
Failing because not enough tests succeeded
diff --git a/smoke_test/output_dir/samtools/1.7 b/smoke_test/output_dir/samtools/1.7
index 4af2407601cf56ac2a1dd352f828f4e6cafc5a99..8b137891791fe96927ad78e64b0aad7bded08bdc 100644
--- a/smoke_test/output_dir/samtools/1.7
+++ b/smoke_test/output_dir/samtools/1.7
@@ -1,3 +1 @@
-samtools 1.7
-Using htslib 1.7
-Copyright (C) 2018 Genome Research Ltd.
+
diff --git a/smoke_test/output_dir/samtools/1.9 b/smoke_test/output_dir/samtools/1.9
index af4914670ddc2b0d65a26a706895d748f99eff06..8b137891791fe96927ad78e64b0aad7bded08bdc 100644
--- a/smoke_test/output_dir/samtools/1.9
+++ b/smoke_test/output_dir/samtools/1.9
@@ -1,3 +1 @@
-samtools 1.9-24-gff68e70
-Using htslib 1.9-20-ge1650a9
-Copyright (C) 2018 Genome Research Ltd.
+
diff --git a/smoke_test/output_dir/samtools/1.9-gcc5 b/smoke_test/output_dir/samtools/1.9-gcc5
index af4914670ddc2b0d65a26a706895d748f99eff06..8b137891791fe96927ad78e64b0aad7bded08bdc 100644
--- a/smoke_test/output_dir/samtools/1.9-gcc5
+++ b/smoke_test/output_dir/samtools/1.9-gcc5
@@ -1,3 +1 @@
-samtools 1.9-24-gff68e70
-Using htslib 1.9-20-ge1650a9
-Copyright (C) 2018 Genome Research Ltd.
+
diff --git a/smoke_test/output_dir/singularity/3.2.1 b/smoke_test/output_dir/singularity/3.2.1
index 5d79d2f4a92b85b6ef8b01a83fab0197e660cea1..f7a548a121326cb439ab58dcaa0c4893315f14bb 100644
--- a/smoke_test/output_dir/singularity/3.2.1
+++ b/smoke_test/output_dir/singularity/3.2.1
@@ -1 +1,2 @@
-singularity version 3.2.1
+[34mINFO: [0m Starting build...
+
0 B / 59.75 MiB [--------------------------------------------------------------------------------------------------------------------] 0.00%
4.00 MiB / 59.75 MiB [======>-------------------------------------------------------------------------------------] 6.69% 19.98 MiB/s 00m02s
8.45 MiB / 59.75 MiB [=============>------------------------------------------------------------------------------] 14.14% 21.10 MiB/s 00m02s
8.45 MiB / 59.75 MiB [=============>------------------------------------------------------------------------------] 14.14% 14.07 MiB/s 00m02s
12.39 MiB / 59.75 MiB [==================>------------------------------------------------------------------------] 20.73% 15.47 MiB/s 00m03s
16.00 MiB / 59.75 MiB [========================>------------------------------------------------------------------] 26.78% 15.99 MiB/s 00m02s
16.00 MiB / 59.75 MiB [========================>------------------------------------------------------------------] 26.78% 13.32 MiB/s 00m02s
24.00 MiB / 59.75 MiB [====================================>------------------------------------------------------] 40.17% 17.13 MiB/s 00m02s
24.00 MiB / 59.75 MiB [====================================>------------------------------------------------------] 40.17% 14.99 MiB/s 00m01s
24.00 MiB / 59.75 MiB [====================================>------------------------------------------------------] 40.17% 13.32 MiB/s 00m01s
32.00 MiB / 59.75 MiB [================================================>------------------------------------------] 53.56% 15.99 MiB/s 00m01s
32.00 MiB / 59.75 MiB [================================================>------------------------------------------] 53.56% 14.54 MiB/s 00m01s
40.00 MiB / 59.75 MiB [============================================================>------------------------------] 66.95% 16.66 MiB/s 00m01s
40.00 MiB / 59.75 MiB [=================================================================>--------------------------------] 66.95% 15.37 MiB/s
48.06 MiB / 59.75 MiB [==============================================================================>-------------------] 80.44% 17.15 MiB/s
56.00 MiB / 59.75 MiB [===========================================================================================>------] 93.72% 18.65 MiB/s
59.75 MiB / 59.75 MiB [===============================================================================================] 100.00% 19.03 MiB/s 3s
diff --git a/smoke_test/smoke_test b/smoke_test/smoke_test
index d0f1ce4a5e32b9e75b12dde26a68098c8b023573..be4a92ffc008d657197c41f5bebcea47ce46460e 100755
--- a/smoke_test/smoke_test
+++ b/smoke_test/smoke_test
@@ -45,11 +45,8 @@ for i in $(head -n $NUM_MODULE $USAGE_REPORT); do
ALL_EXEC=$(ls -X $TESTCASE_DIR/$name)
for i in ${ALL_EXEC}; do
t_case=$TESTCASE_DIR/$name/$i
- if [ $i == 'bintest' ];then
- t_case="$t_case $ver"
- if ! $BINTEST;then break;fi
- fi
- timeout $TIMELIMIT $t_case &> $OUTPUT_DIR/$name/$ver
+ if [ $i == 'bintest' ] && ! $BINTEST;then break;fi
+ timeout $TIMELIMIT $t_case $ver &> $OUTPUT_DIR/$name/$ver
exitcode=$?
if [ $exitcode -ne 0 ]; then
echo "$m return non-zero exitcode $exitcode for testcase $t_case" 2>&1 | tee -a $REPORT
diff --git a/smoke_test/tests/anaconda/bintest b/smoke_test/tests/anaconda/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/anaconda/bintest
+++ b/smoke_test/tests/anaconda/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/atlas/bintest b/smoke_test/tests/atlas/bintest
new file mode 100755
index 0000000000000000000000000000000000000000..81408160a23457cf0b6bbb53bb32fda0b301ade7
--- /dev/null
+++ b/smoke_test/tests/atlas/bintest
@@ -0,0 +1,11 @@
+#!/bin/bash
+name=$( realpath $0 | xargs dirname | xargs basename )
+ver=${1:-"default"}
+bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
+
diff --git a/smoke_test/tests/bedtools/bintest b/smoke_test/tests/bedtools/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/bedtools/bintest
+++ b/smoke_test/tests/bedtools/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/bintest b/smoke_test/tests/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100644
--- a/smoke_test/tests/bintest
+++ b/smoke_test/tests/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/bismark/bintest b/smoke_test/tests/bismark/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/bismark/bintest
+++ b/smoke_test/tests/bismark/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/bowtie2/bintest b/smoke_test/tests/bowtie2/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/bowtie2/bintest
+++ b/smoke_test/tests/bowtie2/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/cuda/bintest b/smoke_test/tests/cuda/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/cuda/bintest
+++ b/smoke_test/tests/cuda/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/cutadapt/bintest b/smoke_test/tests/cutadapt/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/cutadapt/bintest
+++ b/smoke_test/tests/cutadapt/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/deeptools/bintest b/smoke_test/tests/deeptools/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/deeptools/bintest
+++ b/smoke_test/tests/deeptools/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/deeptools/pythoncmd b/smoke_test/tests/deeptools/pythoncmd
new file mode 100755
index 0000000000000000000000000000000000000000..3afe93a317ef32a12d75b44b2cd9d707b0674f7d
--- /dev/null
+++ b/smoke_test/tests/deeptools/pythoncmd
@@ -0,0 +1,3 @@
+#!/usr/bin/env python3
+import deeptools
+print(f'deeptools spec: {deeptools.__spec__}')
diff --git a/smoke_test/tests/fastqc/bintest b/smoke_test/tests/fastqc/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/fastqc/bintest
+++ b/smoke_test/tests/fastqc/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/fftw/bashcmd b/smoke_test/tests/fftw/bashcmd
new file mode 100755
index 0000000000000000000000000000000000000000..4f5e3f24c77b2c02c7d0676f4ba4258afbced75f
--- /dev/null
+++ b/smoke_test/tests/fftw/bashcmd
@@ -0,0 +1,4 @@
+#!/bin/bash
+gcc fftw_example.c -o fftw_example $CPPFLAGS $LDFLAGS -lfftw3 -lm
+./fftw_example
+rm fftw_example
diff --git a/smoke_test/tests/fftw/bintest b/smoke_test/tests/fftw/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/fftw/bintest
+++ b/smoke_test/tests/fftw/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/fftw/fftw_example.c b/smoke_test/tests/fftw/fftw_example.c
new file mode 100644
index 0000000000000000000000000000000000000000..fcf9e2d0cb4f3437491c09f48ee702de59ea1b78
--- /dev/null
+++ b/smoke_test/tests/fftw/fftw_example.c
@@ -0,0 +1,64 @@
+
+/* Start reading here */
+
+#include <fftw3.h>
+
+#define NUM_POINTS 64
+
+
+/* Never mind this bit */
+
+#include <stdio.h>
+#include <math.h>
+
+#define REAL 0
+#define IMAG 1
+
+void acquire_from_somewhere(fftw_complex* signal) {
+ /* Generate two sine waves of different frequencies and
+ * amplitudes.
+ */
+
+ int i;
+ for (i = 0; i < NUM_POINTS; ++i) {
+ double theta = (double)i / (double)NUM_POINTS * M_PI;
+
+ signal[i][REAL] = 1.0 * cos(10.0 * theta) +
+ 0.5 * cos(25.0 * theta);
+
+ signal[i][IMAG] = 1.0 * sin(10.0 * theta) +
+ 0.5 * sin(25.0 * theta);
+ }
+}
+
+void do_something_with(fftw_complex* result) {
+ int i;
+ for (i = 0; i < NUM_POINTS; ++i) {
+ double mag = sqrt(result[i][REAL] * result[i][REAL] +
+ result[i][IMAG] * result[i][IMAG]);
+
+ printf("%g\n", mag);
+ }
+}
+
+
+/* Resume reading here */
+
+int main() {
+ fftw_complex signal[NUM_POINTS];
+ fftw_complex result[NUM_POINTS];
+
+ fftw_plan plan = fftw_plan_dft_1d(NUM_POINTS,
+ signal,
+ result,
+ FFTW_FORWARD,
+ FFTW_ESTIMATE);
+
+ acquire_from_somewhere(signal);
+ fftw_execute(plan);
+ do_something_with(result);
+
+ fftw_destroy_plan(plan);
+
+ return 0;
+}
diff --git a/smoke_test/tests/fsl/bintest b/smoke_test/tests/fsl/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/fsl/bintest
+++ b/smoke_test/tests/fsl/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/gcc/bintest b/smoke_test/tests/gcc/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/gcc/bintest
+++ b/smoke_test/tests/gcc/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/geos/bintest b/smoke_test/tests/geos/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/geos/bintest
+++ b/smoke_test/tests/geos/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/gmp/bashcmd b/smoke_test/tests/gmp/bashcmd
new file mode 100755
index 0000000000000000000000000000000000000000..bdff5e4b019727e50bbdbd300e555a0b43f73254
--- /dev/null
+++ b/smoke_test/tests/gmp/bashcmd
@@ -0,0 +1,4 @@
+#!/bin/bash
+gcc fact.c -o fact $CPPFLAGS $LDFLAGS -lgmp
+./fact 20
+rm fact
diff --git a/smoke_test/tests/gmp/bintest b/smoke_test/tests/gmp/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/gmp/bintest
+++ b/smoke_test/tests/gmp/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/gmp/fact b/smoke_test/tests/gmp/fact
new file mode 100755
index 0000000000000000000000000000000000000000..5528dfa40fd593b2a929e04b4c99ee7fefa3dbce
Binary files /dev/null and b/smoke_test/tests/gmp/fact differ
diff --git a/smoke_test/tests/gmp/fact.c b/smoke_test/tests/gmp/fact.c
new file mode 100644
index 0000000000000000000000000000000000000000..3f2e478a74b80b20404c80bee0849b0a24e1f6c3
--- /dev/null
+++ b/smoke_test/tests/gmp/fact.c
@@ -0,0 +1,37 @@
+
+#include "gmp.h"
+#include <stdio.h>
+#include <stdlib.h>
+#include <assert.h>
+
+void fact(int n){
+ int i;
+ mpz_t p;
+
+ mpz_init_set_ui(p,1); /* p = 1 */
+ for (i=1; i <= n ; ++i){
+ mpz_mul_ui(p,p,i); /* p = p * i */
+ }
+ printf ("%d! = ", n);
+ mpz_out_str(stdout,10,p);
+ mpz_clear(p);
+
+}
+
+int main(int argc, char * argv[]){
+ int n;
+
+
+ if (argc <= 1){
+ printf ("Usage: %s <number> \n", argv[0]);
+ return 2;
+ }
+
+ n = atoi(argv[1]);
+ assert( n >= 0);
+ fact(n);
+
+
+ return 1;
+}
+
diff --git a/smoke_test/tests/gsl/bintest b/smoke_test/tests/gsl/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/gsl/bintest
+++ b/smoke_test/tests/gsl/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/hdf5/bashcmd b/smoke_test/tests/hdf5/bashcmd
index 4ea8fa90a19e9d9985ecddbc1b6c8721b22b1139..a374504ce004f2024762670f71849ea7a76e4559 100755
--- a/smoke_test/tests/hdf5/bashcmd
+++ b/smoke_test/tests/hdf5/bashcmd
@@ -1,2 +1,8 @@
#!/bin/bash
-h5stat --help
+#[ -f hdf5-examples.tar.gz ] || wget https://support.hdfgroup.org/ftp/HDF5/examples/examples-by-api/hdf5-examples.tar.gz
+#[ -d hdf5-examples ] || tar -xf hdf5-examples.tar.gz
+#cd hdf5-examples/
+#
+#
+#
+#rm -r hdf5-examples hdf5-examples.tar.gz
diff --git a/smoke_test/tests/hdf5/bintest b/smoke_test/tests/hdf5/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/hdf5/bintest
+++ b/smoke_test/tests/hdf5/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/htseq/bintest b/smoke_test/tests/htseq/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/htseq/bintest
+++ b/smoke_test/tests/htseq/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/htslib/bintest b/smoke_test/tests/htslib/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/htslib/bintest
+++ b/smoke_test/tests/htslib/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/java/bintest b/smoke_test/tests/java/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/java/bintest
+++ b/smoke_test/tests/java/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/lapack/bintest b/smoke_test/tests/lapack/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/lapack/bintest
+++ b/smoke_test/tests/lapack/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/libjpeg-turbo/bintest b/smoke_test/tests/libjpeg-turbo/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/libjpeg-turbo/bintest
+++ b/smoke_test/tests/libjpeg-turbo/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/libtiff/bintest b/smoke_test/tests/libtiff/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/libtiff/bintest
+++ b/smoke_test/tests/libtiff/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/mpfr/bashcmd b/smoke_test/tests/mpfr/bashcmd
index 1146b3947c08d6b750643f547ab42c68a93e776a..603c30e2345094fcd12f66a32ce123c5842da59c 100755
--- a/smoke_test/tests/mpfr/bashcmd
+++ b/smoke_test/tests/mpfr/bashcmd
@@ -1,3 +1,4 @@
#!/bin/bash
gcc sample.c $CPPFLAGS $LDFLAGS -lmpfr -o sample
./sample
+rm sample
diff --git a/smoke_test/tests/mpfr/bintest b/smoke_test/tests/mpfr/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/mpfr/bintest
+++ b/smoke_test/tests/mpfr/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/openblas/bashcmd b/smoke_test/tests/openblas/bashcmd
index 293bd8bb2be7a79820626191e60d4c4b856197eb..72eef8d76ee610002e45b94d0777efca1ae29729 100755
--- a/smoke_test/tests/openblas/bashcmd
+++ b/smoke_test/tests/openblas/bashcmd
@@ -2,5 +2,7 @@
#https://github.com/xianyi/OpenBLAS/wiki/User-Manual#code-examples
gcc test_cblas_dgemm.c -o test_cblas_open $CPPFLAGS $LDFLAGS -lopenblas
./test_cblas_open
+rm test_cblas_open
gcc -o time_dgemm time_dgemm.c $CPPFLAGS $LDFLAGS -lopenblas
./time_dgemm 10 10 10
+rm time_dgemm
diff --git a/smoke_test/tests/openblas/bintest b/smoke_test/tests/openblas/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/openblas/bintest
+++ b/smoke_test/tests/openblas/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/openblas/test_cblas_open b/smoke_test/tests/openblas/test_cblas_open
deleted file mode 100755
index 7305b33eaf15df6cb35181ced576fd5d6011e09b..0000000000000000000000000000000000000000
Binary files a/smoke_test/tests/openblas/test_cblas_open and /dev/null differ
diff --git a/smoke_test/tests/openblas/timeDGEMM.txt b/smoke_test/tests/openblas/timeDGEMM.txt
index 109492002b519d0ed0eec504a3f8e816da90d15a..89632c3231f7d94d8696a340f6909b85c21f7c00 100644
--- a/smoke_test/tests/openblas/timeDGEMM.txt
+++ b/smoke_test/tests/openblas/timeDGEMM.txt
@@ -1 +1,2 @@
10x10x10 0.000032 s 62.500000 MFLOPS
+10x10x10 0.000041 s 48.780488 MFLOPS
diff --git a/smoke_test/tests/openblas/time_dgemm b/smoke_test/tests/openblas/time_dgemm
deleted file mode 100755
index 5e418b628aa1d9fde4f8dac887d1780bc3422fa8..0000000000000000000000000000000000000000
Binary files a/smoke_test/tests/openblas/time_dgemm and /dev/null differ
diff --git a/smoke_test/tests/openmpi/bashcmd b/smoke_test/tests/openmpi/bashcmd
index 0abf516278f30954bbdfb02db3f506080987c30a..a9bf588e2f88457fdf73ac7361ef1d596fb81453 100755
--- a/smoke_test/tests/openmpi/bashcmd
+++ b/smoke_test/tests/openmpi/bashcmd
@@ -1,4 +1 @@
#!/bin/bash
-mpicc --version
-mpirun --version
-mpirun -np 4 hostname
diff --git a/smoke_test/tests/openmpi/bintest b/smoke_test/tests/openmpi/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/openmpi/bintest
+++ b/smoke_test/tests/openmpi/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/picard/bintest b/smoke_test/tests/picard/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/picard/bintest
+++ b/smoke_test/tests/picard/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/python/bintest b/smoke_test/tests/python/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/python/bintest
+++ b/smoke_test/tests/python/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/samtools/bashcmd b/smoke_test/tests/samtools/bashcmd
deleted file mode 100755
index 58621d8f56ce0d66ee2268f21eebf511fb482dcc..0000000000000000000000000000000000000000
--- a/smoke_test/tests/samtools/bashcmd
+++ /dev/null
@@ -1,2 +0,0 @@
-#!/bin/bash
-samtools --version
diff --git a/smoke_test/tests/samtools/bintest b/smoke_test/tests/samtools/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/samtools/bintest
+++ b/smoke_test/tests/samtools/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/singularity/bashcmd b/smoke_test/tests/singularity/bashcmd
index e9b36418255f260ad7aa356f78e7e321dd115f55..7204cde9d2b3dade07bab11344e8d918860dcea8 100755
--- a/smoke_test/tests/singularity/bashcmd
+++ b/smoke_test/tests/singularity/bashcmd
@@ -1,2 +1,4 @@
#!/bin/bash
-singularity --version
+singularity build hello.sif shub://vsoch/hello-world
+singularity exec hello.sif ls /
+rm hello.sif
diff --git a/smoke_test/tests/singularity/bintest b/smoke_test/tests/singularity/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/singularity/bintest
+++ b/smoke_test/tests/singularity/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/tigervnc/bintest b/smoke_test/tests/tigervnc/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/tigervnc/bintest
+++ b/smoke_test/tests/tigervnc/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/virtualgl/bintest b/smoke_test/tests/virtualgl/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/virtualgl/bintest
+++ b/smoke_test/tests/virtualgl/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/tests/wxwidgets/bintest b/smoke_test/tests/wxwidgets/bintest
index 7922a676de7b8346fd719ed21ebdbc3b88a1f99b..81408160a23457cf0b6bbb53bb32fda0b301ade7 100755
--- a/smoke_test/tests/wxwidgets/bintest
+++ b/smoke_test/tests/wxwidgets/bintest
@@ -2,9 +2,10 @@
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
-for bin in $bin_dirs; do
- for i in $(ls -X $bin); do
- $i --version
- done
-done
+$name --version
+#for bin in $bin_dirs; do
+# for i in $(ls -X $bin); do
+# $i --version
+# done
+#done
diff --git a/smoke_test/usage_stat b/smoke_test/usage_stat
new file mode 100755
index 0000000000000000000000000000000000000000..09ed1fb3b8b48234503c9642333cf4fb343419f8
--- /dev/null
+++ b/smoke_test/usage_stat
@@ -0,0 +1,21 @@
+#!/bin/bash
+name=$1
+ver=$2
+mtime=${3:-180}
+
+#MODULE_LOGGING_PATH=/projects/pMOSP/module_logging
+MODULE_LOGGING_PATH=/home/luhanc/module_logging
+declare -A usage
+while read i;do
+ if [ -f $i ] && grep -q $name/$ver $i; then
+ username=$(dirname $i | xargs basename)
+ if [ ${usage[$username]+_} ]; then
+ usage[$username]=$((usage[$username]+1))
+ else
+ usage[$username]=1
+ fi
+ fi
+done < <(find $MODULE_LOGGING_PATH -mtime -$mtime)
+declare -i total=0
+for K in "${!usage[@]}"; do echo $K --- ${usage[$K]};total+=${usage[$K]}; done
+echo "Total $total use in past $mtime days"