Hi, I am developing a tool with unknown output dataset number; so, I am trying to use discover_datasets tag. I have tested the following code as explained in the galaxy project documentation: <tool id="sr_discover1" name="Discover"> <command> echo "Hello" > $report; mkdir subdir1; echo "This" > subdir1/this.txt; echo "That" > subdir1/that.txt; mkdir subdir2; echo "1" > subdir2/CUSTOM_1.txt; echo "2" > subdir2/CUSTOM_2.tabular; echo "3" > subdir2/CUSTOM_3.txt; mkdir subdir3; echo "Foo" > subdir3/Foo; echo "mapped reads" > split_bam_.MAPPED.bam; echo "unmapped reads" > split_bam_.UNMAPPED.bam; echo "1" > sample1.report.tsv; echo "2" > sample2.report.tsv; echo "3" > sample3.report.tsv; </command> <inputs> <param name="num_param" type="integer" value="7" /> <param name="input" type="data" /> </inputs> <outputs> <data format="txt" name="report"> <discover_datasets pattern="__designation_and_ext__" directory="subdir1" visible="true" /> <discover_datasets pattern="CUSTOM_(?P<designation>.+)\.(?P<ext>.+)" directory="subdir2" visible="true" /> <discover_datasets pattern="__designation__" directory="subdir3" ext="input" visible="true" /> <discover_datasets pattern="split_bam_\.(?P<designation>([A-Z-])\w+)\.bam" ext="txt" visible="true" /> <discover_datasets pattern="(?P<designation>.+)\.report\.tsv" ext="tabular" visible="true" /> </data> </outputs> </tool> But, when I look at he result, I only obtain a single dataset corresponding to the "report" and the following information: Job Command-Line: echo "Hello" > /path/database/job_working_directory/002/2227/galaxy_dataset_5307.dat; mkdir subdir1; echo "This" > subdir1/this.txt; echo "That" > subdir1/that.txt; mkdir subdir2; echo "1" > subdir2/CUSTOM_1.txt; echo "2" > subdir2/CUSTOM_2.tabular; echo "3" > subdir2/CUSTOM_3.txt; mkdir subdir3; echo "Foo" > subdir3/Foo; echo "mapped reads" > split_bam_.MAPPED.bam; echo "unmapped reads" > split_bam_.UNMAPPED.bam; echo "1" > sample1.report.tsv; echo "2" > sample2.report.tsv; echo "3" > sample3.report.tsv; and when I check in the job_working_directory, no "subdir(1,2 and 3)" folders have been created and no datasets displayed on galaxy as results. Can someone help me understand how discover_datasets work and why all the supposed multi datasets are not displayed in the galaxy interface? Thanks in advance. Best regards, -- Signature e-mail TWB Sabrina **Sabrina LEGOUEIX RODRIGUEZ** Responsable Plateau Bioinformatique Tél. : +33 (0) 5 61 28 57 92 sabrina.legoueix@toulouse.inra.fr <mailto:[MAIL]> www.toulouse-white-biotechnology.com <http://www.toulouse-white-biotechnology.com/> LinkedIn <https://www.linkedin.com/company/2757525h> Twitter <https://twitter.com/TWB_Biotech> TWB - Parc technologique du canal • Bâtiment NAPA CENTER B • 3, rue Ariane • 31520 Ramonville Saint-Agne Ce message et ses pièces jointes sont strictement personnels. Ils peuvent contenir des informations confidentielles. Si vous avez reçu ce message par erreur, merci d'en avertir l'expéditeur et de détruire le message et les documents joints. Toute utilisation des informations reçues par erreur est interdite. This message and the attachments are strictly personal. They may contain confidential information. If you have received this message in error, please notify the sender and delete the message and the attachments. Any use of this communication received in error is prohibited.
