| Previous changeset 10:3fe8ef358d66 (2020-01-30) Next changeset 12:fa016f1eea1a (2021-04-07) |
|
Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snippy commit e3844d13b58d22b269b986e03177e6f5efb675b4" |
|
modified:
macros.xml snippy-core.xml snippy.xml snippy_clean_full_aln.xml |
| b |
| diff -r 3fe8ef358d66 -r 5bbf9eada9c2 macros.xml --- a/macros.xml Thu Jan 30 18:18:38 2020 -0500 +++ b/macros.xml Wed Mar 11 03:50:47 2020 -0400 |
| b |
| @@ -57,7 +57,7 @@ </conditional> </xml> - <token name="@VERSION@">4.4.5</token> + <token name="@VERSION@">4.5.0</token> <xml name="citations"> <citations> |
| b |
| diff -r 3fe8ef358d66 -r 5bbf9eada9c2 snippy-core.xml --- a/snippy-core.xml Thu Jan 30 18:18:38 2020 -0500 +++ b/snippy-core.xml Wed Mar 11 03:50:47 2020 -0400 |
| b |
| @@ -1,5 +1,5 @@ <?xml version="1.0" encoding="utf-8"?> -<tool id="snippy_core" name="snippy-core" version="@VERSION@+galaxy2"> +<tool id="snippy_core" name="snippy-core" version="@VERSION@"> <description> Combine multiple Snippy outputs into a core SNP alignment </description> |
| b |
| diff -r 3fe8ef358d66 -r 5bbf9eada9c2 snippy.xml --- a/snippy.xml Thu Jan 30 18:18:38 2020 -0500 +++ b/snippy.xml Wed Mar 11 03:50:47 2020 -0400 |
| b |
| @@ -1,4 +1,4 @@ -<tool id="snippy" name="snippy" version="@VERSION@+galaxy2"> +<tool id="snippy" name="snippy" version="@VERSION@"> <description> Snippy finds SNPs between a haploid reference genome and your NGS sequence reads. </description> @@ -153,8 +153,8 @@ <param name="mincov" value="2" /> <param name="minqual" value="60" /> <param name="outputs" value="outgff,outsum" /> - <output name="snpsum" ftype="tabular" file="a_fna_ref_mincov_2_minqual_60.snps.txt" lines_diff="6" /> - <output name="snpgff" ftype="gff3" file="a_fna_ref_mincov_2_minqual_60.snps.gff" /> + <output name="snpsum" ftype="tabular" file="a_fna_ref_mincov_2_minqual_60.snps.txt" lines_diff="8" /> + <output name="snpgff" ftype="gff3" file="a_fna_ref_mincov_2_minqual_60.snps.gff" lines_diff="2"/> </test> <test> <!-- test 1 - fasta ref one snp --> @@ -168,8 +168,8 @@ <param name="mincov" value="2" /> <param name="minqual" value="60" /> <param name="outputs" value="outgff,outsum" /> - <output name="snpsum" ftype="tabular" file="b_fna_ref_mincov_2_minqual_60.snps.txt" lines_diff="6" /> - <output name="snpgff" ftype="gff3" file="b_fna_ref_mincov_2_minqual_60.snps.gff" /> + <output name="snpsum" ftype="tabular" file="b_fna_ref_mincov_2_minqual_60.snps.txt" lines_diff="8" /> + <output name="snpgff" ftype="gff3" file="b_fna_ref_mincov_2_minqual_60.snps.gff" lines_diff="2"/> </test> <test> <!-- test 2 - fasta ref one snp paired_collection --> @@ -187,8 +187,8 @@ <param name="mincov" value="2" /> <param name="minqual" value="60" /> <param name="outputs" value="outgff,outsum" /> - <output name="snpsum" ftype="tabular" file="b_fna_ref_mincov_2_minqual_60.snps.txt" lines_diff="6" /> - <output name="snpgff" ftype="gff3" file="b_fna_ref_mincov_2_minqual_60.snps.gff" /> + <output name="snpsum" ftype="tabular" file="b_fna_ref_mincov_2_minqual_60.snps.txt" lines_diff="8" /> + <output name="snpgff" ftype="gff3" file="b_fna_ref_mincov_2_minqual_60.snps.gff" lines_diff="2"/> </test> <test> <!-- test 3 - fasta ref one snp single --> @@ -201,8 +201,8 @@ <param name="mincov" value="2" /> <param name="minqual" value="60" /> <param name="outputs" value="outgff,outsum" /> - <output name="snpsum" ftype="tabular" file="b_fna_ref_mincov_2_minqual_60.snps.txt" lines_diff="6" /> - <output name="snpgff" ftype="gff3" file="b_2_fna_ref_mincov_2_minqual_60.snps.gff" /> + <output name="snpsum" ftype="tabular" file="b_fna_ref_mincov_2_minqual_60.snps.txt" lines_diff="8" /> + <output name="snpgff" ftype="gff3" file="b_2_fna_ref_mincov_2_minqual_60.snps.gff" lines_diff="2"/> </test> <test> <!-- test 4 - reference source as cached --> @@ -215,8 +215,8 @@ <param name="mincov" value="2" /> <param name="minqual" value="60" /> <param name="outputs" value="outgff,outsum" /> - <output name="snpsum" ftype="tabular" file="b_fna_ref_mincov_2_minqual_60.snps.txt" lines_diff="6" /> - <output name="snpgff" ftype="gff3" file="b_2_fna_ref_mincov_2_minqual_60.snps.gff" /> + <output name="snpsum" ftype="tabular" file="b_fna_ref_mincov_2_minqual_60.snps.txt" lines_diff="8" /> + <output name="snpgff" ftype="gff3" file="b_2_fna_ref_mincov_2_minqual_60.snps.gff" lines_diff="2"/> </test> </tests> |
| b |
| diff -r 3fe8ef358d66 -r 5bbf9eada9c2 snippy_clean_full_aln.xml --- a/snippy_clean_full_aln.xml Thu Jan 30 18:18:38 2020 -0500 +++ b/snippy_clean_full_aln.xml Wed Mar 11 03:50:47 2020 -0400 |
| b |
| @@ -1,5 +1,5 @@ <?xml version="1.0" encoding="utf-8"?> -<tool id="snippy_clean_full_aln" name="snippy-clean_full_aln" version="@VERSION@+galaxy0"> +<tool id="snippy_clean_full_aln" name="snippy-clean_full_aln" version="@VERSION@"> <description> Replace any non-standard sequence characters in snippy 'core.full.aln' file. </description> |