Mercurial > repos > jjohnson > peptideshaker

comparison admin_scripts/build_mods_loc.py @ 0:8b99cb00e1c4 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit 3c83b8f8ca60d6399bc5dd7096b830ca1f1c457e-dirty
author jjohnson
date Tue, 15 May 2018 14:50:35 -0400
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-1:000000000000 0:8b99cb00e1c4
1 #!/usr/bin/env python
2
3 import xml.etree.ElementTree as ET
4 from os.path import exists
5
6 with open("searchgui_mods.loc.sample", "w") as output:
7 for mods_path in ["searchGUI_mods.xml", "searchGUI_usermods.xml"]:
8 tree = ET.parse(mods_path)
9 modifications_el = tree.getroot()
10 for mod in modifications_el.findall("{http://www.ncbi.nlm.nih.gov}MSModSpec"):
11 name_el = mod.find("{http://www.ncbi.nlm.nih.gov}MSModSpec_name")
12 output.write("%s\n" % name_el.text.lower())