Étienne Mollier pushed to branch master at Debian Med / python-biopython
Commits: 58fbb4da by Étienne Mollier at 2020-10-04T22:15:06+02:00 overred makeblastdb memory allocation for mipsel - - - - - 5aa1d374 by Étienne Mollier at 2020-10-04T22:16:49+02:00 updated run-unit-test to reflect that change - - - - - 632894cb by Étienne Mollier at 2020-10-04T22:24:29+02:00 routine-update: Ready to upload to unstable - - - - - 3 changed files: - debian/changelog - debian/rules - debian/tests/run-unit-test Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,11 @@ +python-biopython (1.78+dfsg-3) unstable; urgency=medium + + * mpisel build still failing on buildd (host arch mips64el, schroot mipsel) + - overred makeblastdb memory allocation for that arch on build and test; + - updated run-unit-test to reflect that change. + + -- Étienne Mollier <[email protected]> Sun, 04 Oct 2020 22:18:45 +0200 + python-biopython (1.78+dfsg-2) unstable; urgency=medium * Bumped build requirement on ncbi-blast+ 2.10.1-2 and greater: ===================================== debian/rules ===================================== @@ -34,6 +34,14 @@ else EXCLUDEARCHamd64=raxml_tool endif +# virtualized environment, esp. with schroot, may be too constrained for the +# memory allocation required by the test_NCBI_BLAST_tools. See #969608 for +# more details: +# https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=969608#40 +ifeq ($(BUILD_ARCH),mipsel) + export BLASTDB_LMDB_MAP_SIZE = 3000000000 +endif + # avoid tests requiring data base connections if no server is running while we are doing the build # This would not trigger a failure but bloats the build log with irrelevant noise EXCLUDEDATABASE=BioSQL_MySQLdb BioSQL_psycopg2 ===================================== debian/tests/run-unit-test ===================================== @@ -27,12 +27,12 @@ if [ "$(dpkg-architecture -qDEB_BUILD_ARCH)" != "amd64" ]; then rm -f test_BWA_tool.py fi -# arm64 virtualized environment, esp. with schroot, may be too constrained for -# the memory allocation required by the test_NCBI_BLAST_tools. See #969608 -# following for more details: +# virtualized environment, esp. with schroot, may be too constrained for the +# memory allocation required by the test_NCBI_BLAST_tools. See #969608 for +# more details: # https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=969608#40 -if [ "$(dpkg-architecture -qDEB_BUILD_ARCH)" != "arm64" ]; then - BLASTDB_LMDB_MAP_SIZE=20000000000 +if [ "$(dpkg-architecture -qDEB_BUILD_ARCH)" = "mipsel" ]; then + BLASTDB_LMDB_MAP_SIZE=3000000000 export BLASTDB_LMDB_MAP_SIZE fi View it on GitLab: https://salsa.debian.org/med-team/python-biopython/-/compare/63ba5cc15fdf74f88bd71ebbfafcbcd3f49e0b50...632894cbc01ded9ad6a97f57fc1f3fb6ee64c9dc -- View it on GitLab: https://salsa.debian.org/med-team/python-biopython/-/compare/63ba5cc15fdf74f88bd71ebbfafcbcd3f49e0b50...632894cbc01ded9ad6a97f57fc1f3fb6ee64c9dc You're receiving this email because of your account on salsa.debian.org.
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