toolshed upload problem
I've created a repository in the test toolshed and tried uploading gzipped tarballs with all files required. I have several tool config files (.xml) wrapping a single python script with some tool-data dependencies. If I upload a single tool config file with the dependencies, everything is ok. However, if I try uploading more than one config file at a time, it complains with the error message for all but one of the config files: *.xml - This file requires an entry for "'gatk2_picard_indexes'" in the tool_data_table_conf.xml file. Upload a file named tool_data_table_conf.xml.sample to the repository that includes the required entry to correct this error. The tool_data_table_conf.xml.sample file already exists within the tarball. Nothing changes if I upload the file separately. Any ideas? David Hoover Helix Systems Staff
Hi David, Can you send me your tarball? Thanks, Greg Von Kuster On Sep 12, 2012, at 6:16 PM, David Hoover wrote:
I've created a repository in the test toolshed and tried uploading gzipped tarballs with all files required. I have several tool config files (.xml) wrapping a single python script with some tool-data dependencies.
If I upload a single tool config file with the dependencies, everything is ok. However, if I try uploading more than one config file at a time, it complains with the error message for all but one of the config files:
*.xml - This file requires an entry for "'gatk2_picard_indexes'" in the tool_data_table_conf.xml file. Upload a file named tool_data_table_conf.xml.sample to the repository that includes the required entry to correct this error.
The tool_data_table_conf.xml.sample file already exists within the tarball. Nothing changes if I upload the file separately.
Any ideas?
David Hoover Helix Systems Staff ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
Hi David, I committed a fix for this issue in changeset 7662:c4ced3262d0d, which is currently available only in the Galaxy central repository. The fix will be available in the next Galaxy release scheduled for the end of next week. Thanks for reporting this problem, and sorry for the inconvenience. Greg Von Kuster On Sep 12, 2012, at 6:16 PM, David Hoover wrote:
I've created a repository in the test toolshed and tried uploading gzipped tarballs with all files required. I have several tool config files (.xml) wrapping a single python script with some tool-data dependencies.
If I upload a single tool config file with the dependencies, everything is ok. However, if I try uploading more than one config file at a time, it complains with the error message for all but one of the config files:
*.xml - This file requires an entry for "'gatk2_picard_indexes'" in the tool_data_table_conf.xml file. Upload a file named tool_data_table_conf.xml.sample to the repository that includes the required entry to correct this error.
The tool_data_table_conf.xml.sample file already exists within the tarball. Nothing changes if I upload the file separately.
Any ideas?
David Hoover Helix Systems Staff ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
participants (2)
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David Hoover
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Greg Von Kuster