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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bedtools2 2.29.2

Compiler Arm Compiler 20.1.0
Result Dependency Error

Failed Reason

Failed to install dependency package :
------------------------------------------------
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/libiconv-1.16-rbvy3igiw4qft6btr7idktjwcaemxuhp
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/libbsd-0.10.0-exouu5k337ae2cwfpsj63xezz66q4kcp
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/pkgconf-1.7.3-pk3ut5wz7j4ljawbtap432vwutct6mfy
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/xz-5.2.5-g555znztsjyxwvh7ogp5tw2logq3ksnt
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/zlib-1.2.11-zeiksrs3doa337233bumddsxos5wxakt
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/libffi-3.3-d4dvu2shhghn2qvhm3qofdemnaxdoach
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/berkeley-db-18.1.40-7bs4mlpnhts7qyvoovu6l7l2hi3jg4hm
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/diffutils-3.7-v6lqzbd5unyulikx4y7jwlqip7dkwsjr
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/tar-1.32-5r2igeglgmgqoin544y3mgcv2yhofa76
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/expat-2.2.10-qetcbzinvlz7ljaaboysuh5ntjasoqix
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/util-linux-uuid-2.36-e2ex3jyztjovgxgekpbdzzdhbdubi2p5
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/ncurses-6.2-fgvs4g67va2dmkhxgeiu4y3bsfw7y6md
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/libxml2-2.9.10-35gjpgzuiidtypf3wtngmxdv5qme2ltv
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/bzip2-1.0.8-gzbk3k7pncrrwd3bx6ld7cqouwbakdjg
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/readline-8.0-ycr6pam52lcjficruvfaqfvr5v7uc3jl
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/gettext-0.21-btki6ot2jeadduuicep6svn3kpytngf3
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/sqlite-3.34.0-r45twtdqww2kpsngzrnsu6aynq2emhhx
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/gdbm-1.18.1-fovuseo2dtl6viui5jdsgfbmum4d3r3r
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/perl-5.32.1-twm7va7iclkgtp3qey3wfhbq5fczkoh3
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/openssl-1.1.1j-rnzh3om4tyjjsgobwob6tcy62fq775da
[+] /fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/python-3.8.8-yqj3nu5q2nqgzakxdtanpoq3z5pi4bhe
==> Installing bedtools2-2.29.2-k3btovwhpefd6ni4msoo6u4cshzknygh
==> No binary for bedtools2-2.29.2-k3btovwhpefd6ni4msoo6u4cshzknygh found: installing from source
==> Fetching https://postk-web.r-ccs.riken.jp/spack.mirror/_source-cache/archive/bc/bc2f36b5d4fc9890c69f607d54da873032628462e88c545dd633d2c787a544a5.tar.gz
==> No patches needed for bedtools2
==> bedtools2: Executing phase: 'install'
==> Error: ProcessError: Command exited with status 2:
'make' '-j16' 'prefix=/fefs/home/r0007/all-test/arm/spack/opt/spack/linux-rhel8-thunderx2/arm-20.1.0.15/bedtools2-2.29.2-k3btovwhpefd6ni4msoo6u4cshzknygh' 'install'

2 errors found in build log:
373 gcc -g -Wall -O2 -I. -c -o cram/cram_decode.o cram/cram_decode.c
374 gcc -g -Wall -O2 -I. -c -o cram/cram_encode.o cram/cram_encode.c
375 gcc -g -Wall -O2 -I. -c -o cram/cram_external.o cram/cram_external.c
376 gcc -g -Wall -O2 -I. -c -o cram/cram_index.o cram/cram_index.c
377 gcc -g -Wall -O2 -I. -c -o cram/cram_io.o cram/cram_io.c
378 gcc -g -Wall -O2 -I. -c -o cram/cram_samtools.o cram/cram_samtools.c
>> 379 cram/cram_io.c:57:10: fatal error: bzlib.h: No such file or directory
380 #include <bzlib.h>
381 ^~~~~~~~~
382 compilation terminated.
383 make[1]: *** [Makefile:103: cram/cram_io.o] Error 1
384 make[1]: *** Waiting for unfinished jobs....
385 make[1]: Leaving directory '/tmp/r0007/spack-stage/spack-stage-bedtools2-2.29.2-k3btovwhpefd6ni4msoo6u4cshzkn
ygh/spack-src/src/utils/htslib'
>> 386 make: *** [src/utils/htslib/htslib.mk:153: src/utils/htslib/libhts.a] Error 2

See build log for details:
/tmp/r0007/spack-stage/spack-stage-bedtools2-2.29.2-k3btovwhpefd6ni4msoo6u4cshzknygh/spack-build-out.txt


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