List of Open Source Software which can be built on Fugaku
 |
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.
|
cpat 3.0.4
| Compiler | Fujitsu Compiler Fujitsu C/C++ Compiler 4.10.0 tcsds-1.2.38 |
|---|---|
| Result | Dependency Error |
Failed Reason
Failed to install dependency package :
------------------------------------------------
'/vol0004/apps/oss/spack-v0.19/opt/spack/linux-rhel8-a64fx/fj-4.8.1/python-3.10.8-7q66snjvhvy7im57hncbgpirmddrb5sk/bin/python3.10' '-m' 'pip' '-vvv' '--no-input' '--no-cache-dir' '--disable-pip-version-check' 'install' '--no-deps' '--ignore-installed' '--no-build-isolation' '--no-warn-script-location' '--no-index' '--prefix=/vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spack/opt/spack/linux-rhel8-a64fx/fj-4.10.0/py-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx' '.'
4 errors found in build log:
180 /vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spack/l
ib/spack/env/fj/fcc -Wno-unused-result -Wsign-compare -Wunreachable
-code -DNDEBUG -g -fwrapv -O3 -Wall -KPIC -fPIC -I/vol0003/rccs-sdt
/data/a01008/spack-all-test/env-20240227/spack/opt/spack/linux-rhel
8-a64fx/fj-4.10.0/htslib-1.12-ryhyt2iyqssfsbe6xblreozlfxzaz4gh/incl
ude -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-
py-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools
-I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-
pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools/lz
4 -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py
-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/bcftools -
I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-py
sam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/pysam -I/vol0
003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-pysam-0.
19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src -I/vol0004/apps/oss
/spack-v0.19/opt/spack/linux-rhel8-a64fx/fj-4.8.1/python-3.10.8-7q6
6snjvhvy7im57hncbgpirmddrb5sk/include/python3.10 -c samtools/bam_am
pliconclip.c.pysam.c -o build/temp.linux-aarch64-3.10/samtools/bam_
ampliconclip.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign
-compare -Wno-error=declaration-after-statement
181 /vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spack/l
ib/spack/env/fj/fcc -Wno-unused-result -Wsign-compare -Wunreachable
-code -DNDEBUG -g -fwrapv -O3 -Wall -KPIC -fPIC -I/vol0003/rccs-sdt
/data/a01008/spack-all-test/env-20240227/spack/opt/spack/linux-rhel
8-a64fx/fj-4.10.0/htslib-1.12-ryhyt2iyqssfsbe6xblreozlfxzaz4gh/incl
ude -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-
py-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools
-I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-
pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools/lz
4 -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py
-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/bcftools -
I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-py
sam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/pysam -I/vol0
003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-pysam-0.
19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src -I/vol0004/apps/oss
/spack-v0.19/opt/spack/linux-rhel8-a64fx/fj-4.8.1/python-3.10.8-7q6
6snjvhvy7im57hncbgpirmddrb5sk/include/python3.10 -c samtools/bam_au
x.c.pysam.c -o build/temp.linux-aarch64-3.10/samtools/bam_aux.c.pys
am.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-erro
r=declaration-after-statement
182 /vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spack/l
ib/spack/env/fj/fcc -Wno-unused-result -Wsign-compare -Wunreachable
-code -DNDEBUG -g -fwrapv -O3 -Wall -KPIC -fPIC -I/vol0003/rccs-sdt
/data/a01008/spack-all-test/env-20240227/spack/opt/spack/linux-rhel
8-a64fx/fj-4.10.0/htslib-1.12-ryhyt2iyqssfsbe6xblreozlfxzaz4gh/incl
ude -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-
py-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools
-I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-
pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools/lz
4 -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py
-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/bcftools -
I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-py
sam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/pysam -I/vol0
003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-pysam-0.
19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src -I/vol0004/apps/oss
/spack-v0.19/opt/spack/linux-rhel8-a64fx/fj-4.8.1/python-3.10.8-7q6
6snjvhvy7im57hncbgpirmddrb5sk/include/python3.10 -c samtools/bam_ca
t.c.pysam.c -o build/temp.linux-aarch64-3.10/samtools/bam_cat.c.pys
am.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-erro
r=declaration-after-statement
183 /vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spack/l
ib/spack/env/fj/fcc -Wno-unused-result -Wsign-compare -Wunreachable
-code -DNDEBUG -g -fwrapv -O3 -Wall -KPIC -fPIC -I/vol0003/rccs-sdt
/data/a01008/spack-all-test/env-20240227/spack/opt/spack/linux-rhel
8-a64fx/fj-4.10.0/htslib-1.12-ryhyt2iyqssfsbe6xblreozlfxzaz4gh/incl
ude -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-
py-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools
-I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-
pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools/lz
4 -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py
-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/bcftools -
I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-py
sam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/pysam -I/vol0
003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-pysam-0.
19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src -I/vol0004/apps/oss
/spack-v0.19/opt/spack/linux-rhel8-a64fx/fj-4.8.1/python-3.10.8-7q6
6snjvhvy7im57hncbgpirmddrb5sk/include/python3.10 -c samtools/bam_co
lor.c.pysam.c -o build/temp.linux-aarch64-3.10/samtools/bam_color.c
.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-
error=declaration-after-statement
184 /vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spack/l
ib/spack/env/fj/fcc -Wno-unused-result -Wsign-compare -Wunreachable
-code -DNDEBUG -g -fwrapv -O3 -Wall -KPIC -fPIC -I/vol0003/rccs-sdt
/data/a01008/spack-all-test/env-20240227/spack/opt/spack/linux-rhel
8-a64fx/fj-4.10.0/htslib-1.12-ryhyt2iyqssfsbe6xblreozlfxzaz4gh/incl
ude -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-
py-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools
-I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-
pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools/lz
4 -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py
-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/bcftools -
I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-py
sam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/pysam -I/vol0
003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-pysam-0.
19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src -I/vol0004/apps/oss
/spack-v0.19/opt/spack/linux-rhel8-a64fx/fj-4.8.1/python-3.10.8-7q6
6snjvhvy7im57hncbgpirmddrb5sk/include/python3.10 -c samtools/bam_co
nsensus.c.pysam.c -o build/temp.linux-aarch64-3.10/samtools/bam_con
sensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compa
re -Wno-error=declaration-after-statement
185 /vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spack/l
ib/spack/env/fj/fcc -Wno-unused-result -Wsign-compare -Wunreachable
-code -DNDEBUG -g -fwrapv -O3 -Wall -KPIC -fPIC -I/vol0003/rccs-sdt
/data/a01008/spack-all-test/env-20240227/spack/opt/spack/linux-rhel
8-a64fx/fj-4.10.0/htslib-1.12-ryhyt2iyqssfsbe6xblreozlfxzaz4gh/incl
ude -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-
py-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools
-I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-
pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/samtools/lz
4 -I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py
-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/bcftools -
I/vol0003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-py
sam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src/pysam -I/vol0
003/rccs-sdt/data/a01008/tmpdir/spack-stage/spack-stage-py-pysam-0.
19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-src -I/vol0004/apps/oss
/spack-v0.19/opt/spack/linux-rhel8-a64fx/fj-4.8.1/python-3.10.8-7q6
6snjvhvy7im57hncbgpirmddrb5sk/include/python3.10 -c samtools/bam_fa
stq.c.pysam.c -o build/temp.linux-aarch64-3.10/samtools/bam_fastq.c
.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-
error=declaration-after-statement
>> 186 samtools/bam_fastq.c.pysam.c:347:25: error: use of undeclared ident
ifier 'FASTQ_OPT_RNUM'
187 hts_set_opt(fp, FASTQ_OPT_RNUM, 1);
188 ^
>> 189 samtools/bam_fastq.c.pysam.c:350:25: error: use of undeclared ide
ntifier 'FASTQ_OPT_CASAVA'
190 hts_set_opt(fp, FASTQ_OPT_CASAVA, 1);
191 ^
>> 192 samtools/bam_fastq.c.pysam.c:352:21: error: use of undeclared ide
ntifier 'FASTQ_OPT_BARCODE'
193 hts_set_opt(fp, FASTQ_OPT_BARCODE, opts->barcode_tag);
194 ^
>> 195 samtools/bam_fastq.c.pysam.c:363:25: error: use of undeclared ide
ntifier 'FASTQ_OPT_AUX'
196 hts_set_opt(fp, FASTQ_OPT_AUX, tag_list.s);
197 ^
198 4 errors generated.
199 error: command '/vol0003/rccs-sdt/data/a01008/spack-all-test/env-
20240227/spack/lib/spack/env/fj/fcc' failed with exit code 1
200 error: subprocess-exited-with-error
201
See build log for details:
/data/rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-py-pysam-0.19.1-bschlrvt6z2xzyhdhs2vozcdjxi27abx/spack-build-out.txt
==> Error: cpat-3.0.4-54n35kccoweeuqq7py2xn3lmrsn3ytfr: Package was not installed
==> Error: Installation request failed. Refer to reported errors for failing package(s).
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