Mercurial > repos > galaxyp > openms_spectrastsearchadapter
comparison filetypes.txt @ 12:4d189842ebfc draft default tip
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 3d1e5f37fd16524a415f707772eeb7ead848c5e3
| author | galaxyp |
|---|---|
| date | Thu, 01 Dec 2022 19:03:12 +0000 |
| parents | 76adea1e0fde |
| children |
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| 11:76adea1e0fde | 12:4d189842ebfc |
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| 1 # CTD type # Galaxy type | |
| 2 # the following lines need to be at the top in order to ensure | |
| 3 # correct translation Galaxy->CTD type for the ambiguous cases | |
| 4 # (should only be relevant for the autogenerated tests [which | |
| 5 # do not set the ftype of the inputs]) | |
| 6 txt txt | |
| 7 tsv tabular | |
| 8 | |
| 9 ##analysisXML | |
| 10 # XTandemAdapter output is named xml in OMS (which is to unspecific) and bioml in Galaxy .. so this is renamed via hardcoded parameters | |
| 11 bioml xml | |
| 12 consensusXML consensusxml | |
| 13 # TODO csv is problematic, since csv often actually means tsv .. but not always | |
| 14 csv csv | |
| 15 ##dat | |
| 16 dta dta | |
| 17 dta2d dta2d | |
| 18 edta edta | |
| 19 fa fasta | |
| 20 fas fasta | |
| 21 fasta fasta | |
| 22 FASTA fasta | |
| 23 featureXML featurexml | |
| 24 featurexml featurexml | |
| 25 # fid | |
| 26 html html | |
| 27 HTML html | |
| 28 idXML idxml | |
| 29 ##ini txt | |
| 30 json json | |
| 31 kroenik kroenik | |
| 32 mascotXML mascotxml | |
| 33 mgf mgf | |
| 34 mrm mrm | |
| 35 ms sirius.ms | |
| 36 ms2 ms2 | |
| 37 msp msp | |
| 38 mzData mzdata | |
| 39 mzid mzid | |
| 40 # important to have mzML first, since LuciphorAdapter is case sensitive https://github.com/OpenMS/OpenMS/issues/4444 | |
| 41 mzML mzml | |
| 42 mzml mzml | |
| 43 mzq mzq | |
| 44 mzTab mztab | |
| 45 mzXML mzxml | |
| 46 novor txt | |
| 47 obo obo | |
| 48 # I guess this is the idXML output of omssa | |
| 49 omssaXML idxml | |
| 50 osw osw | |
| 51 OSW osw | |
| 52 params txt | |
| 53 paramXML paramxml | |
| 54 fasta peff | |
| 55 peplist peplist | |
| 56 # TODO pep.xml should be removed with OMS 2.6 https://github.com/OpenMS/OpenMS/pull/4541 .. but still in the tests | |
| 57 pep.xml pepxml | |
| 58 pepXML pepxml | |
| 59 png png | |
| 60 PNG png | |
| 61 protXML protxml | |
| 62 psms psms | |
| 63 # TODO implement or use | |
| 64 # psq | |
| 65 pqp pqp | |
| 66 qcML qcml | |
| 67 spec.xml spec.xml | |
| 68 splib splib | |
| 69 sqMass sqmass | |
| 70 tandem.xml tandem | |
| 71 trafoXML trafoxml | |
| 72 traML traml | |
| 73 TraML traml | |
| 74 tab tabular | |
| 75 ## MOVED TO TOP txt txt | |
| 76 raw thermo.raw | |
| 77 ## xls: SpectraSTSearchAdapter https://github.com/OpenMS/OpenMS/pull/4419 | |
| 78 xls tsv | |
| 79 XML xml | |
| 80 xml xml | |
| 81 xquest.xml xquest.xml | |
| 82 xsd xml | |
| 83 | |
| 84 # TODO needs to be implemented, needs to be below xml in order that Galaxy->OMS mapping gives xml | |
| 85 # cachedMzML xml |