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bgolibgoli
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updates and bugfixes
1 parent a06f180 commit 2f44903

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-201
lines changed

‎libpython/qtmetadraft.py

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@@ -249,7 +249,7 @@ def flush(self):
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## Developer mode options
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DEBUG_MODE = True
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DEBUG_MODE = False
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DEL_BLAST_TMP = True
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‎metadradt-templates.wpr

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#!wing
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#!version=7.0
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##################################################################
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# Wing project file #
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##################################################################
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[project attributes]
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proj.directory-list = [{'dirloc': loc('../metadraft_template_data_2021-1'),
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'excludes': (),
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'filter': u'All Source Files',
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'include_hidden': False,
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'recursive': True,
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'watch_for_changes': True}]
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proj.file-type = 'shared'

‎metadradt-templates.wpu

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#!wing
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#!version=7.0
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##################################################################
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# Wing project file : User-specific branch #
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##################################################################
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[user attributes]
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guimgr.overall-gui-state = {'windowing-policy': 'combined-window',
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'Y5eOp7',
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'size-state': '',
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'type': 'dock',
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'view': {'area': 'tall',
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'constraint': None,
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'current_pages': [0,
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'full-screen': False,
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'notebook_display': 'normal',
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'notebook_percent': 0.25,
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'override_title': None,
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'pagelist': [('project',
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{'tree-state': {'file-sort-method': 'by name',
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'list-files-first': False,
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'tree-states': {'deep': {'expanded-nodes': [(0,)],
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'selected-nodes': [(0,)],
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('snippets',
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'tall',
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{}),
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('browser',
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'tall',
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0,
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{}),
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('debug-stack',
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'tall',
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1,
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{}),
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'tall',
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'primary_view_state': {'area': 'wide',
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('debug-data',
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9)],
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(loc('../metadraft_template_data_2021-1/data/bigg2api/get_bigg2.py'),
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{'attrib-starts': [],
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'code-line': " print('Genepoo"\
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"l already contains:', gene['bigg_id'])\r\n",
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'first-line': 0L,
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'zoom': 4L})],
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'has-focus': False,
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[loc('../metadraft_template_data_2021-1/create_models_from_data_v3.py'),
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loc('../metadraft_template_data_2021-1/data/bigg2api/get_bigg2.py')]),
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'open_files': [u'../metadraft_template_data_2021-1/create_models_from_data_v3.py',
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u'../metadraft_template_data_2021-1/data/bigg2api/get_bigg2.py']},
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'saved_notebook_display': None,
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'split_percents': {0: 0.5},
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'splits': 2,
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'tab_location': 'top',
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'traversal_pos': ((1,
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1604439963.632),
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'user_data': {}},
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'saved_notebook_display': None,
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'split_percents': {0: 0.5},
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'splits': 2,
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'tab_location': 'left',
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guimgr.recent-documents = [loc('../metadraft_template_data_2021-1/data/bigg2api/get_bigg2.py'),
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loc('../metadraft_template_data_2021-1/create_models_from_data_v3.py')]
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proj.auto-reformat-enable = 'disabled'
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proj.auto-reformatter = 'black'
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proj.auto-rstrip-on-save = 'on-save-project'
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proj.build-cmd = {None: ('default',
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None)}
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proj.env-vars = {None: ('default',
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[u''])}
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proj.indent-style-policy = 'warn'
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proj.line-ending-policy = 'warn'
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proj.preferred-indent-style = 'spaces-only'
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proj.preferred-line-ending = 'crlf'
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proj.pyexec = {None: ('activate',
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'conda activate metadraft')}
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proj.vcs-system-config = ('proj',
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{'bzr': {'versioncontrol.bzr.active': 'not-active',
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'versioncontrol.bzr.executable': u'bzr'},
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'cvs': {'versioncontrol.cvs.active': 'not-active',
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'versioncontrol.cvs.executable': u'cvs',
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'versioncontrol.cvs.extra-global-args': '-'\
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'z3'},
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'git': {'versioncontrol.git.active': 'active-if-p'\
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'roject-dir',
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'versioncontrol.git.executable': u'git',
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'versioncontrol.git.use-porcelain': True},
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'hg': {'versioncontrol.hg.active': 'not-active',
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'versioncontrol.hg.dont-find-unregistered': True,
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'versioncontrol.hg.executable': u'hg',
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'versioncontrol.hg.extra-global-args': '--'\
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'encoding=utf8'},
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'perforce': {'versioncontrol.perforce.active': 'n'\
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'ot-active',
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'versioncontrol.perforce.dont-find-unregistered': True,
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'versioncontrol.perforce.executable': u'p4',
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'versioncontrol.perforce.extra-global-args': ''},
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'svn': {'versioncontrol.svn.active': 'active-if-p'\
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'roject-dir',
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'versioncontrol.svn.executable': u'svn',
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'versioncontrol.svn.extra-global-args': '',
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'versioncontrol.svn.svnadmin-executable': u'svnadmin'}})
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testing.stored-results = (1,
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[],
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{})

‎tmp/_combine_/1_summary_report.html

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<html> <head> <meta http-equiv="Content-Type" content="text/html; charset=utf-8"> <title>MetaDraft Summary Report</title> </head> <body> <h2 id="page-top">MetaDraft Summary Report</h2> <p><strong>Input file:</strong> test.fasta<br/><strong>Metaproteome:</strong> bigg2-eco41<br/><strong>Result file:</strong> d:\Development\cbmpy-metadraft\blast_results\default\20-11-02\(test)-(bigg2-eco41)-(opt)_metalink.resplus.json<br/><strong>Report date:</strong> 2020-11-02 14:54<br/><strong>MetaDraft version:</strong> 0.9.3</p> <h3>Gene statistics</h3> <table width="80%" border="0" cellspacing="1" cellpadding="1"> <tbody> <tr><td><strong>Model</strong></td><td><strong>Percentage</strong></td><td><strong>Genes</strong></td><td><strong>Avg. score</strong></td></tr><tr><td>bigg2-eco41</td><td>100.0</td><td>33</td><td>1.0</td></tr><tr><td><strong>Total</strong></td><td><strong></strong></td><td><strong>33</strong></td><td><strong></strong></td></tr> </tbody> </table> <h3>Reaction statistics</h3> <table width="80%" border="0" cellspacing="1" cellpadding="1"> <tbody> <tr><td><strong>Model</strong></td><td><strong>Percentage</strong></td><td><strong>Reactions</strong></td><td><strong></strong></td></tr><tr><td>bigg2-eco41</td><td>100.0</td><td>56</td><td></td></tr><tr><td><strong>Total</strong></td><td><strong></strong></td><td><strong>56</strong></td><td><strong></strong></td></tr> </tbody> </table> <h3>Metabolite statistics</h3> <table width="80%" border="0" cellspacing="1" cellpadding="1"> <tbody> <tr><td><strong>Model</strong></td><td><strong>Percentage</strong></td><td><strong>Metabolites</strong></td><td><strong></strong></td></tr><tr><td>bigg2-eco41</td><td>100.0</td><td>129</td><td></td></tr><tr><td><strong>Total</strong></td><td><strong></strong></td><td><strong>129</strong></td><td><strong></strong></td></tr> </tbody> </table> <p><small>Generated by MetaDraft 0.9.3 &copy; <a href="https://systemsbioinformatics.github.io/metatoolkit/">MetaToolkit</a>.</small></p> </body> </html>

‎tmp/_combine_/2_gene_report.html

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‎tmp/_combine_/3_reaction_report.html

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‎tmp/_combine_/4_metabolite_report.html

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‎tmp/_combine_/index.html

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<html>
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<head>
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<meta http-equiv="Content-Type" content="text/html; charset=utf-8">
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<title>MetaDraft Report</title>
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</head>
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<body>
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<h3 id="section-reports">Model Reports</h3>
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<ol>
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<li><a href="./1_summary_report.html">Summary report</a></li>
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<li><a href="./2_gene_report.html">Gene report</a></li>
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<li><a href="./3_reaction_report.html">Reaction report</a></li>
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<li><a href="./4_metabolite_report.html">Metabolite report</a></li>
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</ol>
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<h3 id="section-files">Included Files</h3>
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<ul>
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<li><a href="./test.xml">SBML 3 FBC</a> version of the reconstruction</li>
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<li><a href="./test.xls">Excel</a> format summary of the reconstruction</li>
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</ul>
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</body>
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</html>

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