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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bsseeker2 2.1.8

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 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 ncurses-6.1-qbvus6vwvtyxe33hxq4hbpazkrpy6ctb)
[+] /usr (external perl-5.26.3-cfeod657avcbjzlstrxizeulrdfnqb3r)
==> Installing htslib-1.4-h7lny66m5np5iwqvtacglpgo7nbogyta
==> No binary for htslib-1.4-h7lny66m5np5iwqvtacglpgo7nbogyta found: installing from source
==> Fetching https://mirror.spack.io/_source-cache/archive/5c/5cfc8818ff45cd6e924c32fec2489cb28853af8867a7ee8e755c4187f5883350.tar.bz2
==> No patches needed for htslib
==> htslib: Executing phase: 'autoreconf'
==> htslib: Executing phase: 'configure'
==> htslib: Executing phase: 'build'
==> htslib: Executing phase: 'install'
==> htslib: Successfully installed htslib-1.4-h7lny66m5np5iwqvtacglpgo7nbogyta
Fetch: 1.13s. Build: 2m 19.30s. Total: 2m 20.43s.
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/htslib-1.4-h7lny66m5np5iwqvtacglpgo7nbogyta
[+] /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
==> Installing samtools-1.4-yep3lpdnb4wqe4wea3cqk5niwjp5773i
==> No binary for samtools-1.4-yep3lpdnb4wqe4wea3cqk5niwjp5773i found: installing from source
==> Fetching https://mirror.spack.io/_source-cache/archive/9a/9aae5bf835274981ae22d385a390b875aef34db91e6355337ca8b4dd2960e3f4.tar.bz2
==> No patches needed for samtools
==> samtools: Executing phase: 'install'
==> Error: ProcessError: Command exited with status 1:
'./configure' '--prefix=/vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/samtools-1.4-yep3lpdnb4wqe4wea3cqk5niwjp5773i' '--with-htslib=/vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/htslib-1.4-h7lny66m5np5iwqvtacglpgo7nbogyta' '--with-ncurses' 'CURSES_LIB=-lncursesw -ltinfow'

2 errors found in build log:
11 checking for /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/sp
ack/lib/spack/env/fj/fcc option to accept ISO C89... none needed
12 checking for special C compiler options needed for large files... no
13 checking for _FILE_OFFSET_BITS value needed for large files... no
14 checking for htslib/sam.h... yes
15 checking for hts_version in -lhts... yes
16 checking for Curses library... no
>> 17 configure: error: curses development files not found
18
19 The 'samtools tview' command uses the curses text user interface lib
rary.
20 Building samtools with tview requires curses/ncurses/etc development
files
21 to be installed on the build machine; you may need to ensure a packa
ge such
22 as libncurses5-dev (on Debian or Ubuntu Linux) or ncurses-devel (on
RPM-based
23 Linux distributions) is installed.
24
>> 25 FAILED. Either configure --without-curses or resolve this error to
build
26 samtools successfully.

See build log for details:
/home/rccs-sdt/a01008/spack-stage/spack-stage-samtools-1.4-yep3lpdnb4wqe4wea3cqk5niwjp5773i/spack-build-out.txt

==> Installing bcftools-1.4-6gf7mt5k3ch4jqel3bi3gud5tqsjesit
==> No binary for bcftools-1.4-6gf7mt5k3ch4jqel3bi3gud5tqsjesit found: installing from source
==> Warning: Skipping build of py-pysam-0.15.3-eqywt5yilddzugt5ed5tvfcf4u5klnto since samtools-1.4-yep3lpdnb4wqe4wea3cqk5niwjp5773i failed
==> Warning: Skipping build of bsseeker2-2.1.8-7j3yah6u4w7avwuch7f6omdbx3sy6hhg since py-pysam-0.15.3-eqywt5yilddzugt5ed5tvfcf4u5klnto failed
==> Fetching https://mirror.spack.io/_source-cache/archive/8f/8fb1b0a47ed4e1f9d7c70129d7993aa650da1688fd931b10646d1c4707ae234d.tar.bz2
==> Applied patch /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/var/spack/repos/builtin/packages/bcftools/makefile_14.patch
==> bcftools: Executing phase: 'autoreconf'
==> bcftools: Executing phase: 'configure'
==> bcftools: Executing phase: 'build'
==> bcftools: Executing phase: 'install'
==> bcftools: Successfully installed bcftools-1.4-6gf7mt5k3ch4jqel3bi3gud5tqsjesit
Fetch: 1.28s. Build: 1m 7.90s. Total: 1m 9.18s.
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/bcftools-1.4-6gf7mt5k3ch4jqel3bi3gud5tqsjesit
==> Error: bsseeker2-2.1.8-7j3yah6u4w7avwuch7f6omdbx3sy6hhg: 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/py-cython-0.29.24-rmuycsh3hdsfbp3ffdahdadzgeju5kfs


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