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travis: why wont you work dammit
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tseemann committed Mar 13, 2020
1 parent 3cd5be6 commit 8b64730
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Showing 2 changed files with 5 additions and 9 deletions.
8 changes: 5 additions & 3 deletions .travis.yml
Original file line number Diff line number Diff line change
Expand Up @@ -24,13 +24,15 @@ install:
- "find deps -executable -type f"

script:
- "kmc"
- "skesa --version"
- "shovill --version"
- "shovill --check"
- "shovill --help"
- "! shovill --doesnotexist"
- "shovill --cpus 4 --ram 4 --outdir out.spades --assembler spades --R1 test/R1.fq.gz --R2 test/R2.fq.gz --nostitch --noreadcorr --nocorr"
- "shovill --outdir out.spades --assembler spades --R1 test/R1.fq.gz --R2 test/R2.fq.gz --nostitch --noreadcorr --nocorr"
- "grep '>' out.spades/contigs.fa"
- "shovill --cpus 4 --ram 4 --outdir out.megahit --assembler megahit --R1 test/R1.fq.gz --R2 test/R2.fq.gz --trim"
- "shovill --outdir out.megahit --assembler megahit --R1 test/R1.fq.gz --R2 test/R2.fq.gz --trim"
- "grep '>' out.megahit/contigs.fa"
- "shovill --cpus 4 --ram 4 --outdir out.velvet --assembler velvet --R1 test/R1.fq.gz --R2 test/R2.fq.gz --ram 4 --noreadcorr --nocorr"
- "shovill --outdir out.velvet --assembler velvet --R1 test/R1.fq.gz --R2 test/R2.fq.gz --ram 4 --noreadcorr --nocorr"
- "grep '>' out.velvet/contigs.fa"
6 changes: 0 additions & 6 deletions bin/shovill
Original file line number Diff line number Diff line change
Expand Up @@ -57,12 +57,6 @@ my %VERSION = (
'pilon' => 'pilon --version 2>&1 | grep -v _JAVA',
);

# some tools are just too hard to put into TRAVIS...
if ($ENV{TRAVIS} eq 'true') {
msg("Running in TRAVIS, will remove skesa assembler");
delete $VERSION{'skesa'};
}

# Hardware stats
my $CORES = num_cpus();
my $MEMORY = avail_ram_gb();
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