| Previous changeset 15:3a0bd09a41dd (2019-12-02) Next changeset 17:111884f0d912 (2020-06-04) |
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Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/prokka/ commit 0d2c8359cf38498b417b395d081daad47d08ee40" |
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modified:
prokka.xml test-data/out.err test-data/out.gff test-data/out.tbl |
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| diff -r 3a0bd09a41dd -r bf68eb663bc3 prokka.xml --- a/prokka.xml Mon Dec 02 08:01:42 2019 -0500 +++ b/prokka.xml Sun Jan 19 04:37:01 2020 -0500 |
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| @@ -1,7 +1,7 @@ -<tool id="prokka" name="Prokka" version="1.13+galaxy1"> +<tool id="prokka" name="Prokka" version="1.14.5"> <description>Prokaryotic genome annotation</description> <requirements> - <requirement type="package" version="1.13">prokka</requirement> + <requirement type="package" version="1.14.5">prokka</requirement> </requirements> <version_command>prokka --version</version_command> |
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| diff -r 3a0bd09a41dd -r bf68eb663bc3 test-data/out.err --- a/test-data/out.err Mon Dec 02 08:01:42 2019 -0500 +++ b/test-data/out.err Sun Jan 19 04:37:01 2020 -0500 |
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| @@ -69,13 +69,13 @@ DiscRep_ALL:DISC_QUALITY_SCORES::Quality scores are missing on all sequences. DiscRep_ALL:ONCALLER_COMMENT_PRESENT::7 comment descriptors were found (all same) -outdir/prokka:contig1:Annotated using prokka 1.13 from https://github.com/tseemann/prokka -outdir/prokka:contig2:Annotated using prokka 1.13 from https://github.com/tseemann/prokka -outdir/prokka:contig3:Annotated using prokka 1.13 from https://github.com/tseemann/prokka -outdir/prokka:contig4:Annotated using prokka 1.13 from https://github.com/tseemann/prokka -outdir/prokka:contig5:Annotated using prokka 1.13 from https://github.com/tseemann/prokka -outdir/prokka:contig6:Annotated using prokka 1.13 from https://github.com/tseemann/prokka -outdir/prokka:contig7:Annotated using prokka 1.13 from https://github.com/tseemann/prokka +outdir/prokka:contig1:Annotated using prokka 1.14.5 from https://github.com/tseemann/prokka +outdir/prokka:contig2:Annotated using prokka 1.14.5 from https://github.com/tseemann/prokka +outdir/prokka:contig3:Annotated using prokka 1.14.5 from https://github.com/tseemann/prokka +outdir/prokka:contig4:Annotated using prokka 1.14.5 from https://github.com/tseemann/prokka +outdir/prokka:contig5:Annotated using prokka 1.14.5 from https://github.com/tseemann/prokka +outdir/prokka:contig6:Annotated using prokka 1.14.5 from https://github.com/tseemann/prokka +outdir/prokka:contig7:Annotated using prokka 1.14.5 from https://github.com/tseemann/prokka DiscRep_ALL:SHORT_PROT_SEQUENCES::2 protein sequences are shorter than 50 aa. outdir/prokka:contig2_2 (length 38) |
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| diff -r 3a0bd09a41dd -r bf68eb663bc3 test-data/out.gff --- a/test-data/out.gff Mon Dec 02 08:01:42 2019 -0500 +++ b/test-data/out.gff Sun Jan 19 04:37:01 2020 -0500 |
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| @@ -6,11 +6,11 @@ ##sequence-region contig5 1 490 ##sequence-region contig6 1 1960 ##sequence-region contig7 1 276 -contig2 Prodigal:2.6 CDS 40 498 . + 0 ID=HMJLFLJH_00001;inference=ab initio prediction:Prodigal:2.6;locus_tag=HMJLFLJH_00001;product=hypothetical protein -contig2 Prodigal:2.6 CDS 498 614 . + 0 ID=HMJLFLJH_00002;inference=ab initio prediction:Prodigal:2.6;locus_tag=HMJLFLJH_00002;product=hypothetical protein -contig4 Prodigal:2.6 CDS 21 884 . + 0 ID=HMJLFLJH_00003;inference=ab initio prediction:Prodigal:2.6;locus_tag=HMJLFLJH_00003;product=hypothetical protein -contig5 Prodigal:2.6 CDS 275 406 . + 0 ID=HMJLFLJH_00004;inference=ab initio prediction:Prodigal:2.6;locus_tag=HMJLFLJH_00004;product=hypothetical protein -contig6 Prodigal:2.6 CDS 6 767 . + 0 ID=HMJLFLJH_00005;inference=ab initio prediction:Prodigal:2.6;locus_tag=HMJLFLJH_00005;product=hypothetical protein +contig2 Prodigal:002006 CDS 40 498 . + 0 ID=HMJLFLJH_00001;inference=ab initio prediction:Prodigal:002006;locus_tag=HMJLFLJH_00001;product=hypothetical protein +contig2 Prodigal:002006 CDS 498 614 . + 0 ID=HMJLFLJH_00002;inference=ab initio prediction:Prodigal:002006;locus_tag=HMJLFLJH_00002;product=hypothetical protein +contig4 Prodigal:002006 CDS 21 884 . + 0 ID=HMJLFLJH_00003;inference=ab initio prediction:Prodigal:002006;locus_tag=HMJLFLJH_00003;product=hypothetical protein +contig5 Prodigal:002006 CDS 275 406 . + 0 ID=HMJLFLJH_00004;inference=ab initio prediction:Prodigal:002006;locus_tag=HMJLFLJH_00004;product=hypothetical protein +contig6 Prodigal:002006 CDS 6 767 . + 0 ID=HMJLFLJH_00005;inference=ab initio prediction:Prodigal:002006;locus_tag=HMJLFLJH_00005;product=hypothetical protein ##FASTA >contig1 GAGTTTTATCGCTTCCATGACGCAGAAGTTAACACTTTCGGATATTTCTGATGAGTCGAA |
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| diff -r 3a0bd09a41dd -r bf68eb663bc3 test-data/out.tbl --- a/test-data/out.tbl Mon Dec 02 08:01:42 2019 -0500 +++ b/test-data/out.tbl Sun Jan 19 04:37:01 2020 -0500 |
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| @@ -1,27 +1,27 @@ >Feature contig1 >Feature contig2 40 498 CDS - inference ab initio prediction:Prodigal:2.6 + inference ab initio prediction:Prodigal:002006 locus_tag HMJLFLJH_00001 product hypothetical protein 498 614 CDS - inference ab initio prediction:Prodigal:2.6 + inference ab initio prediction:Prodigal:002006 locus_tag HMJLFLJH_00002 product hypothetical protein >Feature contig3 >Feature contig4 21 884 CDS - inference ab initio prediction:Prodigal:2.6 + inference ab initio prediction:Prodigal:002006 locus_tag HMJLFLJH_00003 product hypothetical protein >Feature contig5 275 406 CDS - inference ab initio prediction:Prodigal:2.6 + inference ab initio prediction:Prodigal:002006 locus_tag HMJLFLJH_00004 product hypothetical protein >Feature contig6 6 767 CDS - inference ab initio prediction:Prodigal:2.6 + inference ab initio prediction:Prodigal:002006 locus_tag HMJLFLJH_00005 product hypothetical protein >Feature contig7 |