Barcode Splitter Files Web Based

Question: Barcode Splitter Files Web Based

5.7 years ago by

HI, I'm trying to use the output files from barcode splitter. I know that the command line as some wrappers made that take the output files and puts them in the history. Is there anything similar for output files but for us biologists who don't do command line? J Thanks, Ann CONFIDENTIALITY NOTICE: This electronic message is intended to be for the use only of the named recipient, and may contain information that is confidential or privileged. If you are not the intended recipient, you are hereby notified that any disclosure, copying, distribution or use of the contents of this message is strictly prohibited. If you have received this message in error or are not the named recipient, please notify us immediately by contacting the sender at the electronic mail address noted above, and delete and destroy all copies of this message. Thank you.

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modified 5.7 years ago by Jennifer Hillman Jackson ♦ 25k • written 5.7 years ago by Ann Holtz-Morris, M.S. • 80

5.7 years ago by

Jennifer Hillman Jackson ♦ 25k

United States

Jennifer Hillman Jackson ♦ 25k wrote:

Hi Ann, For just using the UI interface, I know of only one method (there may be others): 1 - click on the "eye" icon to view the HTML barcode splitter output table 2 - then for each individual file a - right click to capture the "Copy Link Location" URL of the file b - go to the tool "Get Data -> Upload File" and paste that URL into the " URL/Text:" box c - make other settings, like file format or database assignment d - submit and the data will load as a dataset If there is a better way, we'll post an update. Meanwhile, I hope this is helpful! Jen Galaxy team -- Jennifer Hillman-Jackson Galaxy Support and Training http://galaxyproject.org

ADD COMMENT • link written 5.7 years ago by Jennifer Hillman Jackson ♦ 25k

Is there now a better way to import files that are actually already in galaxy? Is there a trello card for this? It would save our users a lot of time and nerves to be able to do this. thank you very much, ido

ADD REPLY • link written 5.4 years ago by Ido M. Tamir • 280

Not right now. The issue is that these files are part of a composite datatype, and there's not currently a way to extract files from a composite datatype and create Galaxy datasets for each. One potential solution is to transition this tool wrapper to produce a variable number of output files using this approach: http://wiki.galaxyproject.org/Admin/Tools/Multiple%20Output%20Files#Nu mber_of_Output_datasets_cannot_be_determined_until_tool_run Another is to extend the language constructs in a tool definition to make it possible to use logical expressions (e.g. 3 * $inputs.length) to create a certain number of output datasets. Not that I can find, but one could be useful. J.

ADD REPLY • link written 5.4 years ago by Jeremy Goecks • 2.2k

Not all the files should be converted to datasets. It would be good if there is a restful API call for this saying "promote this output file to a dataset in the background". Then one could create HTML pages with many output files without cluttering the history and the user can herself decide which one to use for further analysis. This would be a more general solution. best, ido

ADD REPLY • link written 5.4 years ago by Ido M. Tamir • 280

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