List of Open Source Software which can be built on Fugaku

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Spack will be used to manage open source software packages on Fugaku. Fugaku users can easily use pre-installed packages and built packages based on Spack recipes. The following list shows the results of building/compiling packages for aarch64 according to the Spack recipes. Note that the results in this list do not guarantee that each package will work properly. On the other hand, Fujitsu will provide the following packages compiled with Fujitsu compiler on Fugaku as "external" packages, of which Spack can be aware.
  • OpenJDK 11
  • Ruby 2.6.5 or later
  • Python2 2.7.15
  • Python3 3.6.8
  • Numpy 1.14.3
  • SciPy 1.0.0
  • Eclipse IDE 2019-09 R Packages
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generax 2.0.4

Compiler Fujitsu Compiler Fujitsu C/C++ Compiler 4.10.0 tcsds-1.2.38
Result Dependency Error

Failed Reason

Failed to install dependency package :
------------------------------------------------
-modules/src/tree && /vol0003/rccs-sdt/data/a01008/spack-all-test/e
nv-20240227/spack/lib/spack/env/fj/fcc -D_USE_MATH_DEFINES -I/data/
rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-generax-2.0.4-klsg44
hbefapzvbdjd4ffj6plupczubm/spack-src/ext/pll-modules/libs/libpll/sr
c -I/data/rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-generax-2.
0.4-klsg44hbefapzvbdjd4ffj6plupczubm/spack-src/ext/pll-modules/src/
tree -g -Wall -Wsign-compare -D_GNU_SOURCE -std=c99 -O3 -O3 -DNDEBU
G -fPIC -MD -MT ext/pll-modules/src/tree/CMakeFiles/pllmodtree_obj.
dir/pll_tree.c.o -MF CMakeFiles/pllmodtree_obj.dir/pll_tree.c.o.d -
o CMakeFiles/pllmodtree_obj.dir/pll_tree.c.o -c /data/rccs-sdt/a010
08/tmpdir/spack-stage/spack-stage-generax-2.0.4-klsg44hbefapzvbdjd4
ffj6plupczubm/spack-src/ext/pll-modules/src/tree/pll_tree.c
289 [ 19%] Building C object ext/pll-modules/src/util/CMakeFiles/pllmod
util_obj.dir/models_dna.c.o
290 cd /vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-gen
erax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczubm/spack-src/build/ext/pll
-modules/src/util && /vol0003/rccs-sdt/data/a01008/spack-all-test/e
nv-20240227/spack/lib/spack/env/fj/fcc -D_USE_MATH_DEFINES -I/data/
rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-generax-2.0.4-klsg44
hbefapzvbdjd4ffj6plupczubm/spack-src/ext/pll-modules/libs/libpll/sr
c -g -Wall -Wsign-compare -D_GNU_SOURCE -std=c99 -O3 -O3 -DNDEBUG -
fPIC -MD -MT ext/pll-modules/src/util/CMakeFiles/pllmodutil_obj.dir
/models_dna.c.o -MF CMakeFiles/pllmodutil_obj.dir/models_dna.c.o.d
-o CMakeFiles/pllmodutil_obj.dir/models_dna.c.o -c /data/rccs-sdt/a
01008/tmpdir/spack-stage/spack-stage-generax-2.0.4-klsg44hbefapzvbd
jd4ffj6plupczubm/spack-src/ext/pll-modules/src/util/models_dna.c
291 In file included from /data/rccs-sdt/a01008/tmpdir/spack-stage/spac
k-stage-generax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczubm/spack-src/ex
t/pll-modules/libs/libpll/src/compress.c:22:
>> 292 /data/rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-generax-2.0.4-
klsg44hbefapzvbdjd4ffj6plupczubm/spack-src/ext/pll-modules/libs/lib
pll/src/pll.h:50:10: fatal error: 'x86intrin.h' file not found
293 #include <x86intrin.h>
294 ^~~~~~~~~~~~~
295 /data/rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-generax-2.0.4-
klsg44hbefapzvbdjd4ffj6plupczubm/spack-src/ext/pll-modules/src/tree
/consensus.c:164:21: warning: unused variable 'next_n' [-Wunused-va
riable]
296 pll_unode_t * next_n = create_consensus_node(tree,
297 ^
298 1 warning generated.
299 make[2]: Leaving directory '/vol0003/rccs-sdt/data/a01008/tmpdir/sp
ack-stage/spack-stage-generax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczub
m/spack-src/build'
300 1 error generated.
>> 301 make[2]: *** [ext/pll-modules/libs/libpll/src/CMakeFiles/pll_obj.di
r/build.make:101: ext/pll-modules/libs/libpll/src/CMakeFiles/pll_ob
j.dir/compress.c.o] Error 1
302 make[2]: Leaving directory '/vol0003/rccs-sdt/data/a01008/tmpdir/sp
ack-stage/spack-stage-generax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczub
m/spack-src/build'
>> 303 make[1]: *** [CMakeFiles/Makefile2:413: ext/pll-modules/libs/libpll
/src/CMakeFiles/pll_obj.dir/all] Error 2
304 make[1]: *** Waiting for unfinished jobs....
305 [ 20%] Building C object ext/pll-modules/src/algorithm/CMakeFiles/p
llmodalgorithm_obj.dir/pllmod_algorithm.c.o
306 cd /vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-gen
erax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczubm/spack-src/build/ext/pll
-modules/src/algorithm && /vol0003/rccs-sdt/data/a01008/spack-all-t
est/env-20240227/spack/lib/spack/env/fj/fcc -D_USE_MATH_DEFINES -I/
data/rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-generax-2.0.4-k
lsg44hbefapzvbdjd4ffj6plupczubm/spack-src/ext/pll-modules/libs/libp
ll/src -I/data/rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-gener
ax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczubm/spack-src/ext/pll-modules
/src/algorithm/../binary -I/data/rccs-sdt/a01008/tmpdir/spack-stage
/spack-stage-generax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczubm/spack-s
rc/ext/pll-modules/src/algorithm/../msa -I/data/rccs-sdt/a01008/tmp
dir/spack-stage/spack-stage-generax-2.0.4-klsg44hbefapzvbdjd4ffj6pl
upczubm/spack-src/ext/pll-modules/src/algorithm/../optimize -I/data
/rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-generax-2.0.4-klsg4
4hbefapzvbdjd4ffj6plupczubm/spack-src/ext/pll-modules/src/algorithm
/../tree -I/data/rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-gen
erax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczubm/spack-src/ext/pll-modul
es/src/algorithm/../util -g -Wall -Wsign-compare -D_GNU_SOURCE -std
=c99 -O3 -O3 -DNDEBUG -fPIC -MD -MT ext/pll-modules/src/algorithm/C
MakeFiles/pllmodalgorithm_obj.dir/pllmod_algorithm.c.o -MF CMakeFil
es/pllmodalgorithm_obj.dir/pllmod_algorithm.c.o.d -o CMakeFiles/pll
modalgorithm_obj.dir/pllmod_algorithm.c.o -c /data/rccs-sdt/a01008/
tmpdir/spack-stage/spack-stage-generax-2.0.4-klsg44hbefapzvbdjd4ffj
6plupczubm/spack-src/ext/pll-modules/src/algorithm/pllmod_algorithm
.c
307 1 warning generated.
308 [ 20%] Built target pllmodmsa_obj
309 [ 21%] Building C object ext/pll-modules/src/tree/CMakeFiles/pllmod
tree_obj.dir/rtree_operations.c.o

...

748 cd /vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-gen
erax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczubm/spack-src/build/src/cor
e && /vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spac
k/opt/spack/linux-rhel8-a64fx/fj-4.10.0/cmake-3.27.7-ussgjuqkqbxi5d
cv7kbp6bugdcjc5ph6/bin/cmake -E cmake_link_script CMakeFiles/joints
earch-core.dir/link.txt --verbose=1
749 /usr/bin/ar qc libjointsearch-core.a "CMakeFiles/jointsearch-core.d
ir/branchlengths/ReconciliationBLEstimator.cpp.o" "CMakeFiles/joint
search-core.dir/IO/NewickParserCommon.cpp.o" "CMakeFiles/jointsearc
h-core.dir/IO/RootedNewickParser.cpp.o" "CMakeFiles/jointsearch-cor
e.dir/IO/Families.cpp.o" "CMakeFiles/jointsearch-core.dir/IO/Logger
.cpp.o" "CMakeFiles/jointsearch-core.dir/IO/GeneSpeciesMapping.cpp.
o" "CMakeFiles/jointsearch-core.dir/IO/FamiliesFileParser.cpp.o" "C
MakeFiles/jointsearch-core.dir/IO/LibpllParsers.cpp.o" "CMakeFiles/
jointsearch-core.dir/IO/Model.cpp.o" "CMakeFiles/jointsearch-core.d
ir/IO/ParallelOfstream.cpp.o" "CMakeFiles/jointsearch-core.dir/IO/R
econciliationWriter.cpp.o" "CMakeFiles/jointsearch-core.dir/likelih
oods/LibpllEvaluation.cpp.o" "CMakeFiles/jointsearch-core.dir/likel
ihoods/ReconciliationEvaluation.cpp.o" "CMakeFiles/jointsearch-core
.dir/maths/Random.cpp.o" "CMakeFiles/jointsearch-core.dir/NJ/MiniNJ
.cpp.o" "CMakeFiles/jointsearch-core.dir/NJ/Cherry.cpp.o" "CMakeFil
es/jointsearch-core.dir/NJ/CherryPro.cpp.o" "CMakeFiles/jointsearch
-core.dir/NJ/NeighborJoining.cpp.o" "CMakeFiles/jointsearch-core.di
r/optimizers/DTLOptimizer.cpp.o" "CMakeFiles/jointsearch-core.dir/o
ptimizers/PerFamilyDTLOptimizer.cpp.o" "CMakeFiles/jointsearch-core
.dir/optimizers/SpeciesTreeOptimizer.cpp.o" "CMakeFiles/jointsearch
-core.dir/parallelization/ParallelContext.cpp.o" "CMakeFiles/joints
earch-core.dir/parallelization/PerCoreGeneTrees.cpp.o" "CMakeFiles/
jointsearch-core.dir/parallelization/Scheduler.cpp.o" "CMakeFiles/j
ointsearch-core.dir/routines/scheduled_routines/GeneRaxSlave.cpp.o"
"CMakeFiles/jointsearch-core.dir/routines/scheduled_routines/GeneR
axMaster.cpp.o" "CMakeFiles/jointsearch-core.dir/routines/scheduled
_routines/RaxmlMaster.cpp.o" "CMakeFiles/jointsearch-core.dir/routi
nes/scheduled_routines/RaxmlSlave.cpp.o" "CMakeFiles/jointsearch-co
re.dir/routines/Routines.cpp.o" "CMakeFiles/jointsearch-core.dir/ro
utines/SlavesMain.cpp.o" "CMakeFiles/jointsearch-core.dir/search/Mo
ves.cpp.o" "CMakeFiles/jointsearch-core.dir/search/Rollbacks.cpp.o"
"CMakeFiles/jointsearch-core.dir/search/SearchUtils.cpp.o" "CMakeF
iles/jointsearch-core.dir/search/SPRSearch.cpp.o" "CMakeFiles/joint
search-core.dir/support/ICCalculator.cpp.o" "CMakeFiles/jointsearch
-core.dir/trees/Clade.cpp.o" "CMakeFiles/jointsearch-core.dir/trees
/DSTagger.cpp.o" "CMakeFiles/jointsearch-core.dir/trees/PLLUnrooted
Tree.cpp.o" "CMakeFiles/jointsearch-core.dir/trees/PLLRootedTree.cp
p.o" "CMakeFiles/jointsearch-core.dir/trees/PLLTreeInfo.cpp.o" "CMa
keFiles/jointsearch-core.dir/trees/PolytomySolver.cpp.o" "CMakeFile
s/jointsearch-core.dir/trees/PolyTree.cpp.o" "CMakeFiles/jointsearc
h-core.dir/trees/JointTree.cpp.o" "CMakeFiles/jointsearch-core.dir/
trees/SpeciesTree.cpp.o" "CMakeFiles/jointsearch-core.dir/util/Scen
ario.cpp.o"
750 /usr/bin/ranlib libjointsearch-core.a
751 make[2]: Leaving directory '/vol0003/rccs-sdt/data/a01008/tmpdir/sp
ack-stage/spack-stage-generax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczub
m/spack-src/build'
752 [ 63%] Built target jointsearch-core
753 make[1]: Leaving directory '/vol0003/rccs-sdt/data/a01008/tmpdir/sp
ack-stage/spack-stage-generax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczub
m/spack-src/build'
>> 754 make: *** [Makefile:94: all] Error 2

See build log for details:
/data/rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-generax-2.0.4-klsg44hbefapzvbdjd4ffj6plupczubm/spack-build-out.txt


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