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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kaiju 1.6.2

Compiler Fujitsu Compiler 4.7.0
Result Dependency Error

Failed Reason

Failed to install dependency package :
------------------------------------------------
[+] /usr (external perl-5.26.3-cfeod657avcbjzlstrxizeulrdfnqb3r)
[+] /usr (external bzip2-1.0.6-pkyqs6czmr636ktska3fpjek77reodry)
[+] /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 freetype-2.9.1-dwvapggh55qh4fl64dvaxm2ht5fauxe5)
[+] /usr (external libpng-1.6.34-heedxfzojpqtiev7bmm3u2nkfuqztjea)
[+] /usr (external pkgconf-1.4.2-x2r3t6jrikcoqgyvulfa2xm3cgearc2z)
[+] /opt/FJSVxtclanga/tcsds-latest (external fujitsu-ssl2-head-qa7iyj5emttingfmlg3424h3vekiviw3)
[+] /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 curl-7.61.1-s5ho6wv4jx7d2f2vj27fvdaok5ajslfc)
[+] /usr (external xz-5.2.4-ur7otl6tq7yv3vijsn6wu2nnvot443ku)
[+] /usr (external ncurses-6.1-qbvus6vwvtyxe33hxq4hbpazkrpy6ctb)
[+] /usr (external automake-1.16.1-gbketv7wv244mk5mkf65hyjxew4yocxo)
[+] /usr (external pcre-8.42-ubt55iodsyy4jsmwgjpm7otqpdrrpgt2)
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/perl-extutils-makemaker-7.24-weysni45w4rac2blj76pwwcir26nud7g
[+] /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/libjpeg-9d-5ch7pzpaexz2gdf6wuzxkc2v4y3egeoi
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/htslib-1.12-c5u36oarkl4rtix2agehpbjov64mwmhk
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/swig-4.0.2-fscqhexdv3m4dy7xycwmjs3nibvrsows
==> Installing perl-compress-raw-bzip2-2.081-44ddw5dpyqkfhiwwp353ielazgysvyti
==> No binary for perl-compress-raw-bzip2-2.081-44ddw5dpyqkfhiwwp353ielazgysvyti found: installing from source
==> Fetching https://mirror.spack.io/_source-cache/archive/86/8692b5c9db91954408e24e805fbfda222879da80d89d9410791421e3e5bc3520.tar.gz
==> No patches needed for perl-compress-raw-bzip2
==> perl-compress-raw-bzip2: Executing phase: 'configure'
==> perl-compress-raw-bzip2: Executing phase: 'build'
==> perl-compress-raw-bzip2: Executing phase: 'install'
==> perl-compress-raw-bzip2: Successfully installed perl-compress-raw-bzip2-2.081-44ddw5dpyqkfhiwwp353ielazgysvyti
Fetch: 0.88s. Build: 12.84s. Total: 13.71s.
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/perl-compress-raw-bzip2-2.081-44ddw5dpyqkfhiwwp353ielazgysvyti
==> Installing perl-compress-raw-zlib-2.081-wk7umbbcpfv7j3vdmfi4a5nqzgfrd4gw
==> No binary for perl-compress-raw-zlib-2.081-wk7umbbcpfv7j3vdmfi4a5nqzgfrd4gw found: installing from source
==> Fetching https://mirror.spack.io/_source-cache/archive/e1/e156de345bd224bbdabfcab0eeb3f678a3099a4e86c9d1b6771d880b55aa3a1b.tar.gz
==> No patches needed for perl-compress-raw-zlib
==> perl-compress-raw-zlib: Executing phase: 'configure'
==> perl-compress-raw-zlib: Executing phase: 'build'
==> perl-compress-raw-zlib: Executing phase: 'install'
==> perl-compress-raw-zlib: Successfully installed perl-compress-raw-zlib-2.081-wk7umbbcpfv7j3vdmfi4a5nqzgfrd4gw
Fetch: 0.87s. Build: 12.25s. Total: 13.12s.
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/perl-compress-raw-zlib-2.081-wk7umbbcpfv7j3vdmfi4a5nqzgfrd4gw
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/py-pyparsing-2.4.7-svkdl2gu6r74fpeovo2dzkur2gjc52i7
[+] /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
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/py-pip-21.1.2-lraxbrobmv3m3awsrfqfvxwklwpu52rf
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/py-six-1.16.0-7wy35e2zjrxyks3it4qdao6wlgugjsjj
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/py-cppy-1.1.0-linzg2uz35ut7khvcm63bayt5nbqlr2e
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/py-pillow-8.0.0-p32fnu563iladjafky5ec5ldau4ug4x7
==> Installing samtools-1.12-y54nozxqwkvrpw55euukosgh7bgq7fo5
==> No binary for samtools-1.12-y54nozxqwkvrpw55euukosgh7bgq7fo5 found: installing from source
==> Using cached archive: /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/var/spack/cache/_source-cache/archive/6d/6da3770563b1c545ca8bdf78cf535e6d1753d6383983c7929245d5dba2902dcb.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-1.12-y54nozxqwkvrpw55euukosgh7bgq7fo5' '--with-htslib=/vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/htslib-1.12-c5u36oarkl4rtix2agehpbjov64mwmhk' '--with-ncurses' 'CURSES_LIB=-lncursesw -ltinfow'

2 errors found in build log:
14 checking for C compiler warning flags... -Wall
15 checking for special C compiler options needed for large files... no
16 checking for _FILE_OFFSET_BITS value needed for large files... no
17 checking for htslib/sam.h... yes
18 checking for hts_version in -lhts... yes
19 checking for Curses library... no
>> 20 configure: error: curses development files not found
21
22 The 'samtools tview' command uses the curses text user interface lib
rary.
23 Building samtools with tview requires curses/ncurses/etc development
files
24 to be installed on the build machine; you may need to ensure a packa
ge such
25 as libncurses5-dev (on Debian or Ubuntu Linux) or ncurses-devel (on
RPM-based
26 Linux distributions) is installed.
27
>> 28 FAILED. Either configure --without-curses or resolve this error to
build
29 samtools successfully.

See build log for details:
/home/rccs-sdt/a01008/spack-stage/spack-stage-samtools-1.12-y54nozxqwkvrpw55euukosgh7bgq7fo5/spack-build-out.txt

==> Installing perl-io-compress-2.081-ocihztgdxktvka65isknzcy3unbtcfla
==> No binary for perl-io-compress-2.081-ocihztgdxktvka65isknzcy3unbtcfla found: installing from source
==> Warning: Skipping build of py-pysam-0.15.3-dsc7tls7n2yb3ir6i5gk4w6gmgquebhy since samtools-1.12-y54nozxqwkvrpw55euukosgh7bgq7fo5 failed
==> Warning: Skipping build of py-htseq-0.11.2-kq22nxt4gktamfi7uybwzbhgk5hygacs since py-pysam-0.15.3-dsc7tls7n2yb3ir6i5gk4w6gmgquebhy failed
==> Warning: Skipping build of kaiju-1.6.2-u5c3l6iacrvotas6gvx5hlbc2npd5qzo since py-htseq-0.11.2-kq22nxt4gktamfi7uybwzbhgk5hygacs failed
==> Fetching https://mirror.spack.io/_source-cache/archive/52/5211c775544dc8c511af08edfb1c0c22734daa2789149c2a88d68e17b43546d9.tar.gz
==> No patches needed for perl-io-compress
==> perl-io-compress: Executing phase: 'configure'
==> perl-io-compress: Executing phase: 'build'
==> perl-io-compress: Executing phase: 'install'
==> perl-io-compress: Successfully installed perl-io-compress-2.081-ocihztgdxktvka65isknzcy3unbtcfla
Fetch: 0.89s. Build: 14.20s. Total: 15.09s.
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/perl-io-compress-2.081-ocihztgdxktvka65isknzcy3unbtcfla
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/py-packaging-21.0-s6cid7alqa7tw3xxefl7ekdcot2fjcgn
==> Installing py-numpy-1.21.3-eopspnavmocj2cziofoszo4vonyhfseh
==> No binary for py-numpy-1.21.3-eopspnavmocj2cziofoszo4vonyhfseh found: installing from source
==> Using cached archive: /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/var/spack/cache/_source-cache/archive/63/63571bb7897a584ca3249c86dd01c10bcb5fe4296e3568b2e9c1a55356b6410e.zip
==> Applied patch /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/var/spack/repos/builtin/packages/py-numpy/check_executables.patch
==> py-numpy: Executing phase: 'build'
==> Error: ProcessError: Command exited with status 1:
'/vol0003/rccs-sdt/a01008/opt/python/3.9.9/fj/bin/python3.9' '-s' 'setup.py' '--no-user-cfg' 'build'
See build log for details:
/home/rccs-sdt/a01008/spack-stage/spack-stage-py-numpy-1.21.3-eopspnavmocj2cziofoszo4vonyhfseh/spack-build-out.txt

==> Warning: Skipping build of py-matplotlib-3.2.2-fjqdc74irtx7t57a7dj5y3ozfz7hlrjz since py-numpy-1.21.3-eopspnavmocj2cziofoszo4vonyhfseh failed
==> Warning: Skipping build of bcftools-1.12-6xe3fpopooc3r5wyxzhiyamzjf23dwv2 since py-matplotlib-3.2.2-fjqdc74irtx7t57a7dj5y3ozfz7hlrjz failed
==> Error: kaiju-1.6.2-u5c3l6iacrvotas6gvx5hlbc2npd5qzo: 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-tomli-1.2.1-qxysj56clo6kspouoq4msjtem3n3lijr
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/py-cycler-0.10.0-iyssuq4lbtydqiwmax5gft7kl54vbthx
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/py-kiwisolver-1.3.2-ewoonffipal5ap3mcwl4lzxgajk66pvy
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/py-setuptools-scm-6.3.2-eobdhwxld3ay3ywvassepocvioqlmoyt
[+] /vol0003/rccs-sdt/a01008/spack-all-test/env-20220225/spack/opt/spack/linux-rhel8-a64fx/fj-4.7.0/py-python-dateutil-2.8.2-47xpbgpsge4zr2jarbvsyc5uofvh3srv


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