Hi all, Sounds like something that went on the table earlier ;)
https://sourceforge.net/p/mzmine/mailman/message/33158142/ The old way / design (before 2.13) was handy from user point of view because each step was getting automatically the files generated by the previous step as input for the next step, but was also causing issues (more from link above). Well, don't know if a compromise could be found. As a matter of fact, setting wildcards filtering for each step is constraining, from user side... Best, Gauthier On 04/18/2015 04:31 AM, Tomas Pluskal wrote: > Hi Mike, > > In the selection component you can use wildcards (*) to specify the names of > raw data files that will be used. > > For example > * will use all files > *filtered will use all files with name ending with "filtered" > > And so on. This way you can "program" the batch mode to use exactly the right > files in each step. > > Thinking about that, we could probably add an extra option "Use the files > currently selected in the project window". That would be useful for the first > step of the batch. I'll take a look at it later. > > Best, > > Tomas > > > >> On Apr 18, 2015, at 1:28 AM, Williams,Michael Thomas David >> <mtdwilli...@ufl.edu> wrote: >> >> Hello, >> >> I am having trouble running batch mode analysis using v. 2.14.2 (newest). In >> older versions (2.12 specifically) we are able to select all of the imported >> files and run a batch mod on all files without selecting specific file names >> for each process in the batch. >> >> Is there a way to do something similar with the current version? As it is >> now I have to manually select the files for each step in the batch sequence. >> Which at first is only the raw files. It runs through the Mass detection, >> but because old lists are replaced by new ones (with new names) in each >> subsequent step we get an error and these then have to be run manually since >> the peak list names change with each step (chromatogram builder, >> deconvolution, isotopic grouper, join aligner, etc.). Can this be fixed so >> that the batch process will work? This tends to save us a lot of time >> without having to come back to run each process manually. >> >> Thanks, >> Mike >> >> >> Michael D. Williams >> Postdoctoral Research Associate >> University of Florida >> mtdwilli...@ufl.edu >> ------------------------------------------------------------------------------ >> BPM Camp - Free Virtual Workshop May 6th at 10am PDT/1PM EDT >> Develop your own process in accordance with the BPMN 2 standard >> Learn Process modeling best practices with Bonita BPM through live exercises >> http://www.bonitasoft.com/be-part-of-it/events/bpm-camp-virtual- event?utm_ >> source=Sourceforge_BPM_Camp_5_6_15&utm_medium=email&utm_campaign=VA_SF_______________________________________________ >> Mzmine-devel mailing list >> Mzmine-devel@lists.sourceforge.net >> https://lists.sourceforge.net/lists/listinfo/mzmine-devel > =============================================== > Tomas Pluskal > G0 Cell Unit, Okinawa Institute of Science and Technology Graduate University > 1919-1 Tancha, Onna-son, Okinawa 904-0495, Japan > WWW: https://groups.oist.jp/g0 > TEL: +81-98-966-8684 > Fax: +81-98-966-2890 > > > ------------------------------------------------------------------------------ > BPM Camp - Free Virtual Workshop May 6th at 10am PDT/1PM EDT > Develop your own process in accordance with the BPMN 2 standard > Learn Process modeling best practices with Bonita BPM through live exercises > http://www.bonitasoft.com/be-part-of-it/events/bpm-camp-virtual- event?utm_ > source=Sourceforge_BPM_Camp_5_6_15&utm_medium=email&utm_campaign=VA_SF > _______________________________________________ > Mzmine-devel mailing list > Mzmine-devel@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/mzmine-devel -- Gauthier BOAGLIO CEFE - UMR 5175 1919 route de Mende F-34293 Montpellier cedex 5 Tel: +33/0 4 67 61 32 15 Fax: +33/0 4 67 61 33 36 email: gauthier.boag...@cefe.cnrs.fr www: http://www.cefe.cnrs.fr/en/evolutionary-ecology-and-epidemiology/gauthier-boaglio http://www.evolepid.org/people.php?name=boaglio ------------------------------------------------------------------------------ BPM Camp - Free Virtual Workshop May 6th at 10am PDT/1PM EDT Develop your own process in accordance with the BPMN 2 standard Learn Process modeling best practices with Bonita BPM through live exercises http://www.bonitasoft.com/be-part-of-it/events/bpm-camp-virtual- event?utm_ source=Sourceforge_BPM_Camp_5_6_15&utm_medium=email&utm_campaign=VA_SF _______________________________________________ Mzmine-devel mailing list Mzmine-devel@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mzmine-devel
