diff --git a/.travis.yml b/.travis.yml index 4f0edbe..c3361a3 100644 --- a/.travis.yml +++ b/.travis.yml @@ -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" diff --git a/bin/shovill b/bin/shovill index 69ddb5d..a821cd0 100755 --- a/bin/shovill +++ b/bin/shovill @@ -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();