Package: src:snakemake Version: 3.7.1+dfsg-1 Severity: serious Dear maintainer:
I tried to build this package in stretch with "dpkg-buildpackage -A" (which is what the "Arch: all" autobuilder would do to build it) but it failed: -------------------------------------------------------------------------------- [...] debian/rules build-indep dh build-indep --with python3,sphinxdoc --buildsystem=pybuild --parallel dh_testdir -i -O--buildsystem=pybuild -O--parallel dh_update_autotools_config -i -O--buildsystem=pybuild -O--parallel dh_auto_configure -i -O--buildsystem=pybuild -O--parallel I: pybuild base:184: python3.5 setup.py config running config debian/rules override_dh_auto_build make[1]: Entering directory '/<<BUILDDIR>>/snakemake-3.7.1+dfsg' dh_auto_build I: pybuild base:184: /usr/bin/python3 setup.py build running build running build_py [... snipped ...] wildcards: sample=a Subsequent jobs will be added dynamically depending on the output of this rule rule random_clusters: input: c.init output: c_clusters/cluster_{*} (dynamic) wildcards: sample=c Subsequent jobs will be added dynamically depending on the output of this rule /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory Dynamically updating jobs 4 of 11 steps (36%) done rule concatenate_clusters: input: b_clusters/cluster_0, b_clusters/cluster_2, b_clusters/cluster_1 output: b_final wildcards: sample=b /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory 5 of 11 steps (45%) done Dynamically updating jobs 6 of 10 steps (60%) done rule concatenate_clusters: input: c_clusters/cluster_1, c_clusters/cluster_2, c_clusters/cluster_0 output: c_final wildcards: sample=c /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory 7 of 10 steps (70%) done Dynamically updating jobs 8 of 9 steps (89%) done rule concatenate_clusters: input: a_clusters/cluster_0, a_clusters/cluster_1, a_clusters/cluster_2 output: a_final wildcards: sample=a /bin/bash: /<<BUILDDIR>>/snakemake-3.7.1+dfsg/.pybuild/pythonX.Y_3.5/.bashrc: No such file or directory 9 of 9 steps (100%) done localrule all: input: a_final, b_final, c_final 10 of 9 steps (111%) done E: Build killed with signal TERM after 60 minutes of inactivity -------------------------------------------------------------------------------- This happens randomly. Sometimes it fails, sometimes it does not. When it fails, it does in this way, and sbuild has to terminate the process. I attach four different build logs. Thanks.
snakemake_3.7.1+dfsg-1_amd64-20161116T014246Z.gz
Description: application/gzip
snakemake_3.7.1+dfsg-1_amd64-20161123T013257Z.gz
Description: application/gzip
snakemake_3.7.1+dfsg-1_amd64-20161123T013456Z.gz
Description: application/gzip
snakemake_3.7.1+dfsg-1_amd64-20161125T220118Z.gz
Description: application/gzip