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.
|
freebayes 1.3.5
| Compiler | Fujitsu Compiler 4.7.0 |
|---|---|
| Result | Dependency Error |
Failed Reason
Failed to install dependency package :
------------------------------------------------
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/gnuconfig-2021-08-14-ezyvb3gy7i726n45kwb44a4vxle3if3i
[+] /usr (external perl-5.26.3-cfeod657avcbjzlstrxizeulrdfnqb3r)
[+] /usr (external ncurses-6.1-qbvus6vwvtyxe33hxq4hbpazkrpy6ctb)
[+] /usr (external bzip2-1.0.6-pkyqs6czmr636ktska3fpjek77reodry)
[+] /usr (external curl-7.61.1-s5ho6wv4jx7d2f2vj27fvdaok5ajslfc)
[+] /usr (external xz-5.2.4-ur7otl6tq7yv3vijsn6wu2nnvot443ku)
[+] /usr (external zlib-1.2.11-o3hvygtdcp6vg3bpvsrurq4hgklwtype)
[+] /vol0003/rccs-sdt/a01008/opt/python/3.9.9/fj (external python-3.9.9-3wcip6atrybofsb566d7pjqwhl76u4dp)
[+] /usr (external pkgconf-1.4.2-x2r3t6jrikcoqgyvulfa2xm3cgearc2z)
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/ed-1.4-ssjom2tdp4qe7qt7d7y4qdsepcplwzcr
==> Installing parallel-20210922-gdzdlmg4tl7qji5haitu4nzsdiydz5bw
==> No binary for parallel-20210922-gdzdlmg4tl7qji5haitu4nzsdiydz5bw found: installing from source
==> Fetching https://mirror.spack.io/_source-cache/archive/de/dedca94fc41f2054dbadd9b8361e56015fc8af5d1961c1b982b63e6d86494d66.tar.bz2
==> No patches needed for parallel
==> parallel: Executing phase: 'autoreconf'
==> parallel: Executing phase: 'configure'
==> parallel: Executing phase: 'build'
==> parallel: Executing phase: 'install'
==> parallel: Successfully installed parallel-20210922-gdzdlmg4tl7qji5haitu4nzsdiydz5bw
Fetch: 1.24s. Build: 11.55s. Total: 12.78s.
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/parallel-20210922-gdzdlmg4tl7qji5haitu4nzsdiydz5bw
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/texinfo-6.5-dqgnoe2tyqkmtth6epsjkfp5uwgwvtwz
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/cmake-3.21.4-vgsk3aw6j4szlnkzjz3u57u7qtoosnkz
==> Installing htslib-1.13-fhtjfrpfxso4cg63dmqktjajuysqtgqm
==> No binary for htslib-1.13-fhtjfrpfxso4cg63dmqktjajuysqtgqm found: installing from source
==> Using cached archive: /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/var/spack/cache/_source-cache/archive/f2/f2407df9f97f0bb6b07656579e41a1ca5100464067b6b21bf962a2ea4b0efd65.tar.bz2
==> No patches needed for htslib
==> htslib: Executing phase: 'autoreconf'
==> htslib: Executing phase: 'configure'
==> htslib: Executing phase: 'build'
==> Error: ProcessError: Command exited with status 2:
'make' '-j16' 'V=1'
1 error found in build log:
69 config.status: linking /home/rccs-sdt/a01008/spack-stage/spack-stage
-htslib-1.13-fhtjfrpfxso4cg63dmqktjajuysqtgqm/spack-src/htslib.mk to
htslib.mk
70 config.status: executing mkdir commands
71 ==> htslib: Executing phase: 'build'
72 ==> [2022-03-01-22:56:09.103511] 'make' '-j16' 'V=1'
73 make: Makefile: Too many levels of symbolic links
74 make: stat: Makefile: Too many levels of symbolic links
>> 75 make: *** No rule to make target 'Makefile'. Stop.
See build log for details:
/home/rccs-sdt/a01008/spack-stage/spack-stage-htslib-1.13-fhtjfrpfxso4cg63dmqktjajuysqtgqm/spack-build-out.txt
==> Installing vcftools-0.1.14-padycnneryq5zdbkj2ky57cjirsz7ec6
==> No binary for vcftools-0.1.14-padycnneryq5zdbkj2ky57cjirsz7ec6 found: installing from source
==> Warning: Skipping build of samtools-1.13-i3dfs62qbg4cwtazkdeanomc6nejydbk since htslib-1.13-fhtjfrpfxso4cg63dmqktjajuysqtgqm failed
==> Warning: Skipping build of freebayes-1.3.5-tuip5djbzfgccwvh2m2da223zhfbkmm5 since samtools-1.13-i3dfs62qbg4cwtazkdeanomc6nejydbk failed
==> Fetching https://mirror.spack.io/_source-cache/archive/76/76d799dd9afcb12f1ed42a07bc2886cd1a989858a4d047f24d91dcf40f608582.tar.gz
==> No patches needed for vcftools
==> vcftools: Executing phase: 'autoreconf'
==> vcftools: Executing phase: 'configure'
==> vcftools: Executing phase: 'build'
==> vcftools: Executing phase: 'install'
==> vcftools: Successfully installed vcftools-0.1.14-padycnneryq5zdbkj2ky57cjirsz7ec6
Fetch: 1.00s. Build: 2m 4.31s. Total: 2m 5.30s.
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/vcftools-0.1.14-padycnneryq5zdbkj2ky57cjirsz7ec6
==> Error: freebayes-1.3.5-tuip5djbzfgccwvh2m2da223zhfbkmm5: Package was not installed
==> Error: Installation request failed. Refer to reported errors for failing package(s).
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/ninja-1.10.2-xqnjrwwmhbcvrxnzad4eoj6ty5bftx6l
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/py-setuptools-58.2.0-nwtt7d5cczfaezzecmrcr4swo63tvrg2
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/bc-1.07-brtxzgqn5xcetkujpzryfbmn6pd3yzm6
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/meson-0.60.0-ndoo3khnwedtaakey3qtuh2r6fqq5v6k
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