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magma read_ms_data option --scan selects one spectral tree from an mzxml for processing. Expose as filter option in MS Data form, only when mzXML format is selected.
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Job has the following ms_data_formats:
["mzxml", "mass_tree","form_tree_pos","form_tree_neg"]
For interpreting the tree based on formula's it is necessary to know the ionization mode and should be co…
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MS data input from text area. Can be input into MAGMa with:
magma read_ms_data -f tree manual_input.txt
The text area may contain the following example data for chlorogenic acid:
``` newick
353.0874…
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When quantifying an `MSnExp` or `Spectrum`, check the `spectrum@centroided` slots and stop/warn accordingly.
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Uploading op MzXML zip files does not work a the locally installed MetiTree server at PRI, Wageningen.
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Every 2nd file to process failes and gives the following error: 'Error: was unable to enrich the msnfile using the MSn: filename.RAW.mzxml.cml'