Branden, we have also customised the tol menu and added a university specific section on top just beneath Get data. We have also listed tools twice for convenience. I do not see the need t list a tool twice in the same expanding section. But in another section it should work flawlessly. Having duplicate XML configs can be an issue in future mainetnance. Below a snippet of our tool config. For instance in this (snipped) piece the BLAT_synteny_tool is listed twice in section Artemis..... label Artemis... but also insection local BLAT..... Alex <?xml version="1.0"?> <toolbox> <section name="Get Data" id="getext"> <tool file="data_source/upload.xml"/> <tool file="data_source/microbial_import.xml" /> snip </section> <section name="Get from web" id="webget"> <tool file="data_source/ucsc_tablebrowser.xml" /> <tool file="data_source/ucsc_tablebrowser_test.xml" /> snip <tool file="data_source/epigraph_import.xml" /> <tool file="data_source/epigraph_import_test.xml" /> <tool file="data_source/hbvar.xml" /> <tool file="validation/fix_errors.xml" /> </section> <label text="WUR tools" id="wur_tools" /> <section name="Artemis/MUMmer" id="Artemis_MUMmer_tools"> <tool file="WURtools/genomview_03.xml" /> <label text="MUMmer tools" id="MUMmertools" /> <tool file="WURtools/MUMmer/mummer_tool.xml" /> <tool file="WURtools/MUMmer/run_multi_mummer.xml" /> <tool file="WURtools/MUMmer/mummer_maxmatch.xml" /> <tool file="WURtools/MUMmer/mummer_clustering.xml" /> <tool file="WURtools/MUMmer/mummer_utilities_tool.xml" /> <tool file="WURtools/MUMmer/mummerplot_tool.xml" /> <label text="Artemis tools" id="Artemistools" /> <tool file="WURtools/BLAT_synteny_tool.xml" /> <tool file="WURtools/JoinContigs_galaxy.xml" /> <tool file="WURtools/JoinCoverage_galaxy.xml" /> <tool file="WURtools/genoPlot_03.xml" /> <tool file="WURtools/Artemis/nucmer_coords2ACT_galaxy.xml" /> snip </section> <section name="Local BLAT/BLAST" id="BLATBLAST_tools"> <tool file="WURtools/blat_tool.xml"/> <tool file="WURtools/BLAT_synteny_tool.xml" /> <tool file="WURtools/blastxml_to_eXtra_tabular.xml" /> <tool file="WURtools/blastdbcmd.xml" /> <label text="NCBI BLAST+" id="ncbi_blast_plus_tools" /> <tool file="ncbi_blast_plus/ncbi_blastn_wrapper.xml" /> snip the rest ________________________________________ Van: galaxy-dev-bounces@lists.bx.psu.edu [galaxy-dev-bounces@lists.bx.psu.edu] namens Branden Timm [btimm@wisc.edu] Verzonden: maandag 21 februari 2011 16:05 Aan: galaxy-dev@bx.psu.edu Onderwerp: [galaxy-dev] listing the same tool twice in tool_conf.xml Hi All, My group is trying to create some custom sections in the Tools pane, and have run into an issue. We have a custom section, within which there are three different labels and several tools under each label. We are trying list the same tool under two different labels within the same section. However, the second occurrence of the tool is not displayed. Is it possible to list the same tool twice under the same section? -- Branden Timm btimm@glbrc.wisc.edu _______________________________________________ To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/