3 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/584e7c70df72/ Changeset: 584e7c70df72 Branch: requirements User: BjoernGruening Date: 2014-01-21 18:57:47 Summary: Add missing requirement tags. Affected #: 1 file diff -r f04a1c3c060ed6bd4febfdd9e86ed3cc74cb810e -r 584e7c70df722b0c8217f71d441c942a4ae46d8c lib/galaxy/datatypes/converters/bam_to_bai.xml --- a/lib/galaxy/datatypes/converters/bam_to_bai.xml +++ b/lib/galaxy/datatypes/converters/bam_to_bai.xml @@ -1,4 +1,7 @@ <tool id="CONVERTER_Bam_Bai_0" name="Bam to Bai" hidden="true"> + <requirements> + <requirement type="package">samtools</requirement> + </requirements><command>samtools index $input1 $output1</command><inputs><page> @@ -10,4 +13,4 @@ </outputs><help></help> -</tool> \ No newline at end of file +</tool> https://bitbucket.org/galaxy/galaxy-central/commits/9a814bde0256/ Changeset: 9a814bde0256 Branch: requirements User: BjoernGruening Date: 2014-01-21 18:58:25 Summary: Add missing requirement tags. Affected #: 1 file diff -r 584e7c70df722b0c8217f71d441c942a4ae46d8c -r 9a814bde0256bb4bef40015c043dbc13cfba5975 lib/galaxy/datatypes/converters/sam_to_bam.xml --- a/lib/galaxy/datatypes/converters/sam_to_bam.xml +++ b/lib/galaxy/datatypes/converters/sam_to_bam.xml @@ -5,6 +5,9 @@ To fix this: (a) merge sam_to_bam tool in tools with this conversion (like fasta_to_len conversion); and (b) define a datatype-specific way to set converter parameters. --> + <requirements> + <requirement type="package">samtools</requirement> + </requirements><command interpreter="python">sam_to_bam.py $input1 $output</command><inputs><param name="input1" type="data" format="sam" label="SAM file"/> https://bitbucket.org/galaxy/galaxy-central/commits/377e35b02638/ Changeset: 377e35b02638 User: natefoo Date: 2014-01-28 21:39:53 Summary: Merged in BjoernGruening/galaxy-central-bgruening/requirements (pull request #304) Add missing requirement tags. Affected #: 2 files diff -r 75fe55290794da839956effcfb4af6f7e6464b71 -r 377e35b0263867f25e757f423a8735f1409fa9c4 lib/galaxy/datatypes/converters/bam_to_bai.xml --- a/lib/galaxy/datatypes/converters/bam_to_bai.xml +++ b/lib/galaxy/datatypes/converters/bam_to_bai.xml @@ -1,4 +1,7 @@ <tool id="CONVERTER_Bam_Bai_0" name="Bam to Bai" hidden="true"> + <requirements> + <requirement type="package">samtools</requirement> + </requirements><command>samtools index $input1 $output1</command><inputs><page> @@ -10,4 +13,4 @@ </outputs><help></help> -</tool> \ No newline at end of file +</tool> diff -r 75fe55290794da839956effcfb4af6f7e6464b71 -r 377e35b0263867f25e757f423a8735f1409fa9c4 lib/galaxy/datatypes/converters/sam_to_bam.xml --- a/lib/galaxy/datatypes/converters/sam_to_bam.xml +++ b/lib/galaxy/datatypes/converters/sam_to_bam.xml @@ -5,6 +5,9 @@ To fix this: (a) merge sam_to_bam tool in tools with this conversion (like fasta_to_len conversion); and (b) define a datatype-specific way to set converter parameters. --> + <requirements> + <requirement type="package">samtools</requirement> + </requirements><command interpreter="python">sam_to_bam.py $input1 $output</command><inputs><param name="input1" type="data" format="sam" label="SAM file"/> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.