Support NCBI microbe GTF/GFF with no transcripts (CDS only) #1627
Travis CI / Travis CI - Pull Request
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Sep 5, 2024 in 40m 58s
Build Errored
Details
This is a pull request build.
It is running a build against the merge commit, after merging #1627 Support NCBI microbe annotation with no transcripts (CDS only).
Any changes that have been made to the postreleasefix/113 branch before the build ran are also included.
Jobs and Stages
This build has six jobs, running in two sequential stages.
Stage 1: test
This stage errored.
| Job | Perl | ENV | OS | State |
|---|---|---|---|---|
| 3869.1 |
5.10 | [One of the secure variables in your .travis.yml has an invalid format.] | Linux | errored |
 3869.2 |
5.14 | [One of the secure variables in your .travis.yml has an invalid format.] | Linux | passed |
| 3869.3 |
5.18 | [One of the secure variables in your .travis.yml has an invalid format.] | Linux | passed |
| 3869.4 |
5.22 | [One of the secure variables in your .travis.yml has an invalid format.] | Linux | passed |
| 3869.5 |
5.26 | [One of the secure variables in your .travis.yml has an invalid format.] | Linux | passed |
Stage 2: trigger_dependent_builds
This stage canceled.
| Job | Perl | ENV | OS | State |
|---|---|---|---|---|
 3869.6 |
5.14 | [One of the secure variables in your .travis.yml has an invalid format.] | Linux | canceled |
Build Configuration
| Build Option | Setting |
|---|---|
| Language | Perl |
| Operating System | Linux (Trusty) |
| Perl Versions | 5.10, 5.14, 5.18, 5.22, 5.26 |
Build Configuration
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"linux"
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"group": "deprecated",
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}
},
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"export ENSEMBL_BRANCH=main",
"git clone --branch $ENSEMBL_BRANCH --depth 1 https://github.com/Ensembl/ensembl-test.git",
"git clone --branch $ENSEMBL_BRANCH --depth 1 https://github.com/Ensembl/ensembl.git",
"git clone --branch $ENSEMBL_BRANCH --depth 1 https://github.com/Ensembl/ensembl-io.git",
"git clone --branch $ENSEMBL_BRANCH --depth 1 https://github.com/Ensembl/ensembl-funcgen.git",
"git clone --branch $ENSEMBL_BRANCH --depth 1 https://github.com/Ensembl/ensembl-variation.git",
"export CWD=$PWD",
"export DEPS=$HOME/dependencies",
"mkdir -p $DEPS",
"cd $DEPS",
"$CWD/travisci/get_dependencies.sh",
"cd $CWD"
],
"install": [
"export CWD=$PWD",
"export DEPS=$HOME/dependencies",
"export KENT_SRC=\"$DEPS/kent-335_base/src\"",
"export HTSLIB_DIR=\"$DEPS/htslib\"",
"export MACHTYPE=$(uname -m)",
"export CFLAGS=\"-fPIC\"",
"export PERL5LIB=$DEPS/bioperl-live:$PERL5LIB",
"cd $DEPS",
"$CWD/travisci/build_c.sh",
"cd $CWD",
"cpanm --quiet --installdeps --with-recommends --notest --cpanfile ensembl/cpanfile .",
"cpanm --quiet --installdeps --with-recommends --notest .",
"if [[ \"$COVERALLS\" = 'true' && ! \"${TRAVIS_PERL_VERSION}\" =~ '5.10' ]]; then cpanm --quiet -n Devel::Cover::Report::Coveralls; fi",
"cp travisci/MultiTestDB.conf.travisci t/MultiTestDB.conf"
],
"script": [
"./travisci/harness.sh"
],
"jobs": {
"include": [
{
"stage": "trigger_dependent_builds",
"script": [
"./travisci/trigger-dependent-build.sh"
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"perl": "5.14"
}
]
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"notifications": {
"email": [
{
"on_success": "always",
"on_failure": "always"
}
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}
}
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