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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cleaveland4 4.4

Compiler Fujitsu Compiler 4.7.0
Result Dependency Error

Failed Reason

Failed to install dependency package :
------------------------------------------------
[+] /usr (external zlib-1.2.11-o3hvygtdcp6vg3bpvsrurq4hgklwtype)
[+] /usr (external perl-5.26.3-cfeod657avcbjzlstrxizeulrdfnqb3r)
[+] /usr (external bzip2-1.0.6-pkyqs6czmr636ktska3fpjek77reodry)
[+] /usr (external curl-7.61.1-s5ho6wv4jx7d2f2vj27fvdaok5ajslfc)
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/gnuconfig-2021-08-14-ezyvb3gy7i726n45kwb44a4vxle3if3i
[+] /vol0003/rccs-sdt/a01008/opt/python/3.9.9/fj (external python-3.9.9-3wcip6atrybofsb566d7pjqwhl76u4dp)
[+] /usr (external ncurses-6.1-qbvus6vwvtyxe33hxq4hbpazkrpy6ctb)
==> Installing openjdk-11.0.12_7-a75f25zctkd65qs6k6k3deyegg5s7c6o
==> No binary for openjdk-11.0.12_7-a75f25zctkd65qs6k6k3deyegg5s7c6o found: installing from source
==> Using cached archive: /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/var/spack/cache/_source-cache/archive/10/105bdc12fcd54c551e8e8ac96bc82412467244c32063689c41cee29ceb7452a2.tar.gz
==> No patches needed for openjdk
==> openjdk: Executing phase: 'install'
==> Error: PermissionError: [Errno 13] Permission denied: '/vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/openjdk-11.0.12_7-a75f25zctkd65qs6k6k3deyegg5s7c6o/legal/jdk.crypto.ec/ecc.md'

/vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/var/spack/repos/builtin/packages/openjdk/package.py:144, in install:
142 def install(self, spec, prefix):
143 top_dir = 'Contents/Home/' if platform.system() == "Darwin" else '.'
>> 144 install_tree(top_dir, prefix)

See build log for details:
/home/rccs-sdt/a01008/spack-stage/spack-stage-openjdk-11.0.12_7-a75f25zctkd65qs6k6k3deyegg5s7c6o/spack-build-out.txt

[+] /usr (external pcre2-10.32-2v5oqubg7f5kjsxdijjldrqpmdiocf76)
[+] /usr (external readline-7.0-776innbqk3ca64hss3u4zvuh46f5xe4y)
[+] /usr (external xz-5.2.4-ur7otl6tq7yv3vijsn6wu2nnvot443ku)
==> Installing libsvm-323-qjfodzo5tnn44arisu26dukpz3r36pif
==> No binary for libsvm-323-qjfodzo5tnn44arisu26dukpz3r36pif found: installing from source
==> Warning: Skipping build of r-4.1.1-eqbmww57u5e4ylih2laorzmlgirb54qd since openjdk-11.0.12_7-a75f25zctkd65qs6k6k3deyegg5s7c6o failed
==> Warning: Skipping build of cleaveland4-4.4-dxtjdyefeaz7f2tvnugona3lyrz3qpgw since r-4.1.1-eqbmww57u5e4ylih2laorzmlgirb54qd failed
==> Fetching https://mirror.spack.io/_source-cache/archive/7a/7a466f90f327a98f8ed1cb217570547bcb00077933d1619f3cb9e73518f38196.tar.gz
==> No patches needed for libsvm
==> libsvm: Executing phase: 'edit'
==> libsvm: Executing phase: 'build'
==> libsvm: Executing phase: 'install'
==> libsvm: Successfully installed libsvm-323-qjfodzo5tnn44arisu26dukpz3r36pif
Fetch: 1.07s. Build: 11.69s. Total: 12.76s.
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/libsvm-323-qjfodzo5tnn44arisu26dukpz3r36pif
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/bowtie-1.3.0-iqyjchyfg2fujuy2rgo6qvi52l3xf3x2
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/perl-math-cdf-0.1-a2hvtowtabum73dcmnpbbpstjax3mb5s
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/gsl-2.7-fm4fuduogrkyoqft5vpbzv7ylz5ejlrc
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/icu4c-67.1-hmdff6tgajfx4xdxnlafitauesya5c64
==> 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 ==> [2022-02-28-04:20:36.010639] '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 viennarna-2.4.3-hgughivnc3as4ssj5eiwrdravntfp4bd
==> No binary for viennarna-2.4.3-hgughivnc3as4ssj5eiwrdravntfp4bd found: installing from source
==> Warning: Skipping build of samtools-1.13-i3dfs62qbg4cwtazkdeanomc6nejydbk since htslib-1.13-fhtjfrpfxso4cg63dmqktjajuysqtgqm failed
==> Fetching https://mirror.spack.io/_source-cache/archive/4c/4cda6e22029b34bb9f5375181562f69e4a780a89ead50fe952891835e9933ac0.tar.gz
==> No patches needed for viennarna
==> viennarna: Executing phase: 'autoreconf'
==> viennarna: Executing phase: 'configure'
==> viennarna: Executing phase: 'build'
==> viennarna: Executing phase: 'install'
==> viennarna: Successfully installed viennarna-2.4.3-hgughivnc3as4ssj5eiwrdravntfp4bd
Fetch: 2.34s. Build: 48m 8.61s. Total: 48m 10.95s.
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/viennarna-2.4.3-hgughivnc3as4ssj5eiwrdravntfp4bd
==> Error: cleaveland4-4.4-dxtjdyefeaz7f2tvnugona3lyrz3qpgw: Package was not installed
==> Error: Installation request failed. Refer to reported errors for failing package(s).


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