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CMD_DATA #9

Open
Radhu903 opened this issue Apr 18, 2021 · 0 comments
Open

CMD_DATA #9

Radhu903 opened this issue Apr 18, 2021 · 0 comments

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@Radhu903
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Microsoft Windows [Version 10.0.19041.867]
(c) 2020 Microsoft Corporation. All rights reserved.

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction method --proj activity1
running search main
args Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['activity1'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', 'method', '--proj', 'activity1']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
project files not available for  C:\Users\DELL\CEVOpen\minicorpora\activity1
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction', 'method'] <class 'list'>
projs ['activity1'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['activity1'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)

===========allowed sections=========
 ['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'INTRODUCTION', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
====================================

=============cannot find section============
 ('unknown section: ', 'introduction')
sections to be used; ALL uses whole document (Not yet tested)

========SECTIONS===========
['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'INTRODUCTION', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
===========================


===========================
dict_name: activity
Traceback (most recent call last):
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1136, in <module>
    main()
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1068, in main
    copy_args_to_ami_search(args, ami_search)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1113, in copy_args_to_ami_search
    ami_search.use_projects(args.proj)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 192, in use_projects
    self.add_project(arg)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 195, in add_project
    AmiSearch._append_facet("project", name, self.ami_projects.project_dict, self.projects)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 203, in _append_facet
    raise Exception("unknown name: " +  name + " in " + str(dikt.keys()))
Exception: unknown name: activity1 in dict_keys(['liion10', 'ffml20', 'oil26', 'diffprot', 'oil186', 'activity', 'hydrodistil', 'invasive'])

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction method --proj activity1
running search main
args Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['activity1'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', 'method', '--proj', 'activity1']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction', 'method'] <class 'list'>
projs ['activity1'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['activity1'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)

===========allowed sections=========
 ['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'introduction', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
====================================

=============cannot find section============
 ('unknown section: ', 'method')
sections to be used; ALL uses whole document (Not yet tested)

========SECTIONS===========
['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'introduction', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
===========================


===========================
dict_name: activity
Traceback (most recent call last):
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1136, in <module>
    main()
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1068, in main
    copy_args_to_ami_search(args, ami_search)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1113, in copy_args_to_ami_search
    ami_search.use_projects(args.proj)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 192, in use_projects
    self.add_project(arg)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 195, in add_project
    AmiSearch._append_facet("project", name, self.ami_projects.project_dict, self.projects)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 203, in _append_facet
    raise Exception("unknown name: " +  name + " in " + str(dikt.keys()))
Exception: unknown name: activity1 in dict_keys(['liion10', 'ffml20', 'oil26', 'diffprot', 'oil186', 'activity', 'hydrodistil', 'invasive', 'plantpart'])

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction method --proj activity1
running search main
args Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['activity1'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', 'method', '--proj', 'activity1']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction', 'method'] <class 'list'>
projs ['activity1'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['activity1'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)

===========allowed sections=========
 ['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'introduction', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
====================================

=============cannot find section============
 ('unknown section: ', 'method')
sections to be used; ALL uses whole document (Not yet tested)

========SECTIONS===========
['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'introduction', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
===========================


===========================
dict_name: activity
Traceback (most recent call last):
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1136, in <module>
    main()
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1068, in main
    copy_args_to_ami_search(args, ami_search)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1113, in copy_args_to_ami_search
    ami_search.use_projects(args.proj)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 192, in use_projects
    self.add_project(arg)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 195, in add_project
    AmiSearch._append_facet("project", name, self.ami_projects.project_dict, self.projects)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 203, in _append_facet
    raise Exception("unknown name: " +  name + " in " + str(dikt.keys()))
Exception: unknown name: activity1 in dict_keys(['liion10', 'ffml20', 'oil26', 'diffprot', 'oil186', 'activity', 'hydrodistil', 'invasive', 'plantpart'])

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction method --proj activity
running search main
args Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', 'method', '--proj', 'activity']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction', 'method'] <class 'list'>
projs ['activity'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)

===========allowed sections=========
 ['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'introduction', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
====================================

=============cannot find section============
 ('unknown section: ', 'method')
sections to be used; ALL uses whole document (Not yet tested)

========SECTIONS===========
['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'introduction', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
===========================


===========================
dict_name: activity
***** project C:\Users\DELL\CEVOpen\minicorpora\activity
finished search

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction  --proj activity
running search main
args Namespace(dict=['activity'], sect=['introduction'], proj=['activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', '--proj', 'activity']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction'] <class 'list'>
projs ['activity'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction'], proj=['activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: activity
***** project C:\Users\DELL\CEVOpen\minicorpora\activity
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\CEVOpen\minicorpora\activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *introduction*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\CEVOpen\\minicorpora\\activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*introduction*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\CEVOpen\minicorpora\activity/*/**/*introduction*/**/*.xml
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\CEVOpen\minicorpora\activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *background*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\CEVOpen\\minicorpora\\activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*background*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\CEVOpen\minicorpora\activity/*/**/*background*/**/*.xml
files 1203
***** section_files introduction 1203
file C:\Users\DELL\CEVOpen\minicorpora\activity\PMC7210559\sections\1_body\0_1__introduction\0_title.xml
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
tool: C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity
 [('antioxidant', 181), ('antifungal', 111), ('cosmetics', 15), ('analgesic', 15), ('antiseptic', 12), ('derivative', 10), ('antiprotozoal', 8), ('cytotoxicity', 7), ('antispasmodic', 5), ('perfume', 5), ('antiparasitic', 5), ('antiemetic', 4), ('anxiolytic', 4), ('fungicide', 3), ('antitussive', 3), ('diuretic', 3), ('insecticide', 2), ('phytotoxicity', 2), ('aphrodisiac', 2), ('larvicide', 2)]
MOVE make_dictionary
<dictionary title='C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity'>
  <entry term=`antiseptic'/>
  <entry term=`antioxidant'/>
  <entry term=`antiemetic'/>
  <entry term=`cosmetics'/>
  <entry term=`analgesic'/>
  <entry term=`fungicide'/>
  <entry term=`antifungal'/>
  <entry term=`antitussive'/>
  <entry term=`antiprotozoal'/>
  <entry term=`antispasmodic'/>
  <entry term=`cytotoxicity'/>
  <entry term=`perfume'/>
  <entry term=`diuretic'/>
  <entry term=`antiparasitic'/>
  <entry term=`derivative'/>
  <entry term=`anxiolytic'/>
</dictionary>
finished search

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict plantpart --sect introduction  --proj oil186
running search main
args Namespace(dict=['plantpart'], sect=['introduction'], proj=['oil186'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'plantpart', '--sect', 'introduction', '--proj', 'oil186']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['plantpart'] <class 'list'>
sects ['introduction'] <class 'list'>
projs ['oil186'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['plantpart'], sect=['introduction'], proj=['oil186'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: plantpart
Traceback (most recent call last):
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1136, in <module>
    main()
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1068, in main
    copy_args_to_ami_search(args, ami_search)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1112, in copy_args_to_ami_search
    ami_search.use_dictionaries(args.dict)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 156, in use_dictionaries
    self.add_dictionary(arg)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 165, in add_dictionary
    AmiSearch._append_facet("dictionary", name, self.ami_dictionaries.dictionary_dict, self.dictionaries)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 203, in _append_facet
    raise Exception("unknown name: " +  name + " in " + str(dikt.keys()))
Exception: unknown name: plantpart in dict_keys(['activity', 'country', 'disease', 'compound', 'plant', 'plant_genus', 'organization', 'plant_compound', 'plant_part', 'invasive_plant', 'animaltest', 'cochrane', 'compchem', 'crispr', 'crystal', 'distributions', 'diterpene', 'drugs', 'edgemammals', 'elements', 'epidemic', 'eurofunders', 'illegaldrugs', 'inn', 'insecticide', 'magnetism', 'monoterpene', 'nal', 'nmrspectroscopy', 'obesity', 'optogenetics', 'pectin', 'photosynth', 'plantDevelopment', 'poverty', 'proteinstruct', 'protpredict', 'refugeeUNHCR', 'sesquiterpene', 'solvents', 'statistics', 'tropicalVirus', 'wetlands', 'wildlife'])

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict eoplant_part --sect introduction  --proj oil186
running search main
args Namespace(dict=['eoplant_part'], sect=['introduction'], proj=['oil186'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'eoplant_part', '--sect', 'introduction', '--proj', 'oil186']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['eoplant_part'] <class 'list'>
sects ['introduction'] <class 'list'>
projs ['oil186'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['eoplant_part'], sect=['introduction'], proj=['oil186'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: eoplant_part
Traceback (most recent call last):
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1136, in <module>
    main()
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1068, in main
    copy_args_to_ami_search(args, ami_search)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1112, in copy_args_to_ami_search
    ami_search.use_dictionaries(args.dict)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 156, in use_dictionaries
    self.add_dictionary(arg)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 165, in add_dictionary
    AmiSearch._append_facet("dictionary", name, self.ami_dictionaries.dictionary_dict, self.dictionaries)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 203, in _append_facet
    raise Exception("unknown name: " +  name + " in " + str(dikt.keys()))
Exception: unknown name: eoplant_part in dict_keys(['activity', 'country', 'disease', 'compound', 'plant', 'plant_genus', 'organization', 'plant_compound', 'plant_part', 'invasive_plant', 'animaltest', 'cochrane', 'compchem', 'crispr', 'crystal', 'distributions', 'diterpene', 'drugs', 'edgemammals', 'elements', 'epidemic', 'eurofunders', 'illegaldrugs', 'inn', 'insecticide', 'magnetism', 'monoterpene', 'nal', 'nmrspectroscopy', 'obesity', 'optogenetics', 'pectin', 'photosynth', 'plantDevelopment', 'poverty', 'proteinstruct', 'protpredict', 'refugeeUNHCR', 'sesquiterpene', 'solvents', 'statistics', 'tropicalVirus', 'wetlands', 'wildlife'])

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict plant_part --sect introduction --proj plantpart
running search main
args Namespace(dict=['plant_part'], sect=['introduction'], proj=['plantpart'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'plant_part', '--sect', 'introduction', '--proj', 'plantpart']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['plant_part'] <class 'list'>
sects ['introduction'] <class 'list'>
projs ['plantpart'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['plant_part'], sect=['introduction'], proj=['plantpart'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: plant_part
***** project C:\Users\DELL\CEVOpen\minicorpora\plantpart
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\CEVOpen\minicorpora\plantpart
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *introduction*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\CEVOpen\\minicorpora\\plantpart', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*introduction*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\CEVOpen\minicorpora\plantpart/*/**/*introduction*/**/*.xml
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\CEVOpen\minicorpora\plantpart
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *background*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\CEVOpen\\minicorpora\\plantpart', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*background*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\CEVOpen\minicorpora\plantpart/*/**/*background*/**/*.xml
files 1216
***** section_files introduction 1216
file C:\Users\DELL\CEVOpen\minicorpora\plantpart\PMC7238414\sections\1_body\0_1__introduction\0_title.xml
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
tool: C:\Users\DELL\CEVOpen\dictionary\eoPlantPart\eoplant_part
 [('seed', 82), ('fruit', 69), ('herb', 30), ('leaf', 30), ('root', 22), ('flowering', 19), ('rhizome', 19), ('heartwood', 17), ('peel', 17), ('flower', 12), ('berry', 9), ('bark', 9), ('wood', 8), ('resin', 6), ('shoot', 5), ('trichomes', 5), ('xylem', 4), ('grass', 4), ('panicle', 4), ('calyx', 4), ('epidermis', 4), ('ovary', 3), ('petiole', 2), ('stigma', 2), ('corona', 2), ('placenta', 2)]
MOVE make_dictionary
<dictionary title='C:\Users\DELL\CEVOpen\dictionary\eoPlantPart\eoplant_part'>
  <entry term=`shoot'/>
  <entry term=`herb'/>
  <entry term=`heartwood'/>
  <entry term=`xylem'/>
  <entry term=`leaf'/>
  <entry term=`seed'/>
  <entry term=`berry'/>
  <entry term=`wood'/>
  <entry term=`root'/>
  <entry term=`resin'/>
  <entry term=`trichomes'/>
  <entry term=`fruit'/>
  <entry term=`peel'/>
  <entry term=`flowering'/>
  <entry term=`grass'/>
  <entry term=`flower'/>
  <entry term=`bark'/>
  <entry term=`rhizome'/>
  <entry term=`ovary'/>
  <entry term=`panicle'/>
  <entry term=`calyx'/>
  <entry term=`epidermis'/>
</dictionary>
finished search

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict plant_compound --sect introduction --proj oil186
running search main
args Namespace(dict=['plant_compound'], sect=['introduction'], proj=['oil186'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'plant_compound', '--sect', 'introduction', '--proj', 'oil186']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['plant_compound'] <class 'list'>
sects ['introduction'] <class 'list'>
projs ['oil186'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['plant_compound'], sect=['introduction'], proj=['oil186'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: plant_compound
***** project C:\Users\DELL\CEVOpen/searches/oil186
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\CEVOpen/searches/oil186
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *introduction*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\CEVOpen/searches/oil186', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*introduction*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\CEVOpen/searches/oil186/*/**/*introduction*/**/*.xml
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\CEVOpen/searches/oil186
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *background*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\CEVOpen/searches/oil186', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*background*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\CEVOpen/searches/oil186/*/**/*background*/**/*.xml
files 1002
***** section_files introduction 1002
file C:\Users\DELL\CEVOpen/searches/oil186\PMC4391421\sections\1_body\0_introduction\0_title.xml
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
tool: C:\Users\DELL\CEVOpen\dictionary\eoCompound\plant_compound
 [('carvacrol', 18), ('thymol', 14), ('eugenol', 14), ('caryophyllene', 4), ('chavicol', 4), ('ethanol', 4), ('p-cymene', 3), ('nerol', 3), ('cedrol', 2), ('terpinolene', 2), ('hexane', 2), ('estragole', 2), ('geraniol', 2), ('pulegone', 2), ('sabinene', 2), ('acetone', 2), ('(e)-cinnamaldehyde', 2)]
MOVE make_dictionary
<dictionary title='C:\Users\DELL\CEVOpen\dictionary\eoCompound\plant_compound'>
  <entry term=`thymol'/>
  <entry term=`carvacrol'/>
  <entry term=`eugenol'/>
  <entry term=`p-cymene'/>
  <entry term=`caryophyllene'/>
  <entry term=`chavicol'/>
  <entry term=`ethanol'/>
  <entry term=`nerol'/>
</dictionary>
finished search

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict plant --sect introduction --proj oil186
running search main
args Namespace(dict=['plant'], sect=['introduction'], proj=['oil186'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'plant', '--sect', 'introduction', '--proj', 'oil186']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['plant'] <class 'list'>
sects ['introduction'] <class 'list'>
projs ['oil186'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['plant'], sect=['introduction'], proj=['oil186'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: plant
***** project C:\Users\DELL\CEVOpen/searches/oil186
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\CEVOpen/searches/oil186
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *introduction*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\CEVOpen/searches/oil186', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*introduction*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\CEVOpen/searches/oil186/*/**/*introduction*/**/*.xml
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\CEVOpen/searches/oil186
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *background*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\CEVOpen/searches/oil186', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*background*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\CEVOpen/searches/oil186/*/**/*background*/**/*.xml
files 1002
***** section_files introduction 1002
file C:\Users\DELL\CEVOpen/searches/oil186\PMC4391421\sections\1_body\0_introduction\0_title.xml
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
tool: C:\Users\DELL\CEVOpen\dictionary\eoPlant\plant
 [('basil', 32), ('cinnamon', 24), ('oregano', 12), ('marjoram', 2)]
MOVE make_dictionary
<dictionary title='C:\Users\DELL\CEVOpen\dictionary\eoPlant\plant'>
  <entry term=`cinnamon'/>
  <entry term=`oregano'/>
  <entry term=`basil'/>
</dictionary>
finished search

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction method  --proj oil186
running search main
args Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['oil186'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', 'method', '--proj', 'oil186']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction', 'method'] <class 'list'>
projs ['oil186'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['oil186'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)

===========allowed sections=========
 ['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'introduction', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
====================================

=============cannot find section============
 ('unknown section: ', 'method')
sections to be used; ALL uses whole document (Not yet tested)

========SECTIONS===========
['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'introduction', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
===========================


===========================
dict_name: activity
***** project C:\Users\DELL\CEVOpen/searches/oil186
finished search

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction method  --proj activity1
running search main
args Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['activity1'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', 'method', '--proj', 'activity1']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction', 'method'] <class 'list'>
projs ['activity1'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction', 'method'], proj=['activity1'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)

===========allowed sections=========
 ['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'introduction', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
====================================

=============cannot find section============
 ('unknown section: ', 'method')
sections to be used; ALL uses whole document (Not yet tested)

========SECTIONS===========
['ABSTRACT', 'ACKNOW', 'AFFIL', 'AUTHOR', 'BACKGROUND', 'DISCUSS', 'EMPTY', 'ETHICS', 'FIG_CAPTION', 'FRONT', 'introduction', 'JRNL', 'KEYWORD', 'METHOD', 'MATERIAL', 'OCTREE', 'PDFIMAGE', 'PUB_DATE', 'PUBLISHER', 'REFERENCE', 'RESULTS', 'RESULTS', 'SECTIONS', 'SVG', 'TABLE', 'TITLE', 'WORD']
===========================


===========================
dict_name: activity
***** project C:\Users\DELL\activity1
finished search

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction  --proj activity1
running search main
args Namespace(dict=['activity'], sect=['introduction'], proj=['activity1'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', '--proj', 'activity1']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction'] <class 'list'>
projs ['activity1'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction'], proj=['activity1'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: activity
Traceback (most recent call last):
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1136, in <module>
    main()
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1068, in main
    copy_args_to_ami_search(args, ami_search)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 1113, in copy_args_to_ami_search
    ami_search.use_projects(args.proj)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 192, in use_projects
    self.add_project(arg)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 195, in add_project
    AmiSearch._append_facet("project", name, self.ami_projects.project_dict, self.projects)
  File "C:\Users\DELL\openDiagram\physchem\python\search_lib.py", line 203, in _append_facet
    raise Exception("unknown name: " +  name + " in " + str(dikt.keys()))
Exception: unknown name: activity1 in dict_keys(['liion10', 'ffml20', 'oil26', 'diffprot', 'oil186', 'eo_activity', 'hydrodistil', 'invasive', 'plantpart'])

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction  --proj eo_activity
running search main
args Namespace(dict=['activity'], sect=['introduction'], proj=['eo_activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', '--proj', 'eo_activity']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction'] <class 'list'>
projs ['eo_activity'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction'], proj=['eo_activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: activity
***** project C:\Users\DELL\eo_activity
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *introduction*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*introduction*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*introduction*/**/*.xml
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *background*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*background*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*background*/**/*.xml
files 0
***** section_files introduction 0
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
tool: C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity
 []
MOVE make_dictionary
<dictionary title='C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity'>
</dictionary>
finished search

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction  --proj eo_activity
running search main
args Namespace(dict=['activity'], sect=['introduction'], proj=['eo_activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', '--proj', 'eo_activity']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction'] <class 'list'>
projs ['eo_activity'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction'], proj=['eo_activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: activity
***** project C:\Users\DELL\eo_activity
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *introduction*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*introduction*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*introduction*/**/*.xml
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *background*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*background*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*background*/**/*.xml
files 579
***** section_files introduction 579
file C:\Users\DELL\eo_activity\PMC7514039\sections\1_body\0_introduction\0_title.xml
wrote sentence file C:\Users\DELL\eo_activity\PMC7514039\sections\1_body\0_introduction\0_title.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7514039\sections\1_body\0_introduction\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7514039\sections\1_body\0_introduction\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7514039\sections\1_body\0_introduction\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7540227\sections\1_body\0_introduction\0_title.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7540227\sections\1_body\0_introduction\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7540227\sections\1_body\0_introduction\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7553295\sections\1_body\0_introduction\0_title.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7553295\sections\1_body\0_introduction\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7553295\sections\1_body\0_introduction\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7553295\sections\1_body\0_introduction\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7553295\sections\1_body\0_introduction\4_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7587570\sections\1_body\0_1__introduction\0_title.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7587570\sections\1_body\0_1__introduction\10_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7587570\sections\1_body\0_1__introduction\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7587570\sections\1_body\0_1__introduction\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7587570\sections\1_body\0_1__introduction\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7587570\sections\1_body\0_1__introduction\4_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7587570\sections\1_body\0_1__introduction\5_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7587570\sections\1_body\0_1__introduction\6_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7587570\sections\1_body\0_1__introduction\7_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7587570\sections\1_body\0_1__introduction\8_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7587570\sections\1_body\0_1__introduction\9_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7608662\sections\1_body\0_introduction\0_title.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7608662\sections\1_body\0_introduction\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7608662\sections\1_body\0_introduction\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7608662\sections\1_body\0_introduction\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7608662\sections\1_body\0_introduction\4_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7608662\sections\1_body\0_introduction\5_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7608662\sections\1_body\0_introduction\6_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7645447\sections\1_body\0_introduction\0_title.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7645447\sections\1_body\0_introduction\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7645447\sections\1_body\0_introduction\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7645447\sections\1_body\0_introduction\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7645447\sections\1_body\0_introduction\4_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7645447\sections\1_body\0_introduction\5_p.txt
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wrote sentence file C:\Users\DELL\eo_activity\PMC7479404\sections\1_body\0_background\0_title.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7479404\sections\1_body\0_background\1_p.txt
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wrote sentence file C:\Users\DELL\eo_activity\PMC7479404\sections\1_body\0_background\10_plant_essential_oils_and_\0_title.txt
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wrote sentence file C:\Users\DELL\eo_activity\PMC7479404\sections\1_body\0_background\15_anthraquinones\0_title.txt
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findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
tool: C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity
 [('antioxidant', 66), ('antifungal', 59), ('derivative', 9), ('antiprotozoal', 8), ('antiseptic', 7), ('cytotoxicity', 7), ('analgesic', 7), ('antiparasitic', 6), ('cosmetics', 4), ('anxiolytic', 4), ('antispasmodic', 3)]
MOVE make_dictionary
<dictionary title='C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity'>
  <entry term=`antifungal'/>
  <entry term=`antioxidant'/>
  <entry term=`antiseptic'/>
  <entry term=`cosmetics'/>
  <entry term=`cytotoxicity'/>
  <entry term=`analgesic'/>
  <entry term=`antispasmodic'/>
  <entry term=`anxiolytic'/>
  <entry term=`antiparasitic'/>
  <entry term=`derivative'/>
  <entry term=`antiprotozoal'/>
</dictionary>
finished search

C:\Users\DELL\openDiagram\physchem\python>
C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction METHOD --proj eo_activity
running search main
args Namespace(dict=['activity'], sect=['introduction', 'METHOD'], proj=['eo_activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', 'METHOD', '--proj', 'eo_activity']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction', 'METHOD'] <class 'list'>
projs ['eo_activity'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction', 'METHOD'], proj=['eo_activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: activity
***** project C:\Users\DELL\eo_activity
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *introduction*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*introduction*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*introduction*/**/*.xml
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *background*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*background*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*background*/**/*.xml
files 579
***** section_files introduction 579
file C:\Users\DELL\eo_activity\PMC7514039\sections\1_body\0_introduction\0_title.xml
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
tool: C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity
 [('antioxidant', 66), ('antifungal', 59), ('derivative', 9), ('antiprotozoal', 8), ('antiseptic', 7), ('cytotoxicity', 7), ('analgesic', 7), ('antiparasitic', 5), ('cosmetics', 4), ('anxiolytic', 4), ('antispasmodic', 3)]
MOVE make_dictionary
<dictionary title='C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity'>
  <entry term=`antifungal'/>
  <entry term=`antioxidant'/>
  <entry term=`antiseptic'/>
  <entry term=`cosmetics'/>
  <entry term=`cytotoxicity'/>
  <entry term=`analgesic'/>
  <entry term=`antispasmodic'/>
  <entry term=`anxiolytic'/>
  <entry term=`antiparasitic'/>
  <entry term=`derivative'/>
  <entry term=`antiprotozoal'/>
</dictionary>
_DESC <class 'str'> methods and/or materials; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *method*
SUBSUB <class 'str'> **
FILE <class 'str'> *p
SUFFIX <class 'str'> xml
glob {'_DESC': 'methods and/or materials; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*method*', 'SUBSUB': '**', 'FILE': '*p', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*method*/**/*p.xml
_DESC <class 'str'> methods and/or materials; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *material*
SUBSUB <class 'str'> **
FILE <class 'str'> *p
SUFFIX <class 'str'> xml
glob {'_DESC': 'methods and/or materials; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*material*', 'SUBSUB': '**', 'FILE': '*p', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*material*/**/*p.xml
files 1526
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wrote sentence file C:\Users\DELL\eo_activity\PMC7996600\sections\1_body\1_2__review_methodology_and\4_2_3__miscellaneous_sesqui\3_2_3_2__dihydro_β_agarofur\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7996600\sections\1_body\1_2__review_methodology_and\4_2_3__miscellaneous_sesqui\3_2_3_2__dihydro_β_agarofur\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7996600\sections\1_body\1_2__review_methodology_and\4_2_3__miscellaneous_sesqui\4_2_3_3__sesquiterpene_alka\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7996600\sections\1_body\1_2__review_methodology_and\4_2_3__miscellaneous_sesqui\4_2_3_3__sesquiterpene_alka\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7996600\sections\1_body\1_2__review_methodology_and\4_2_3__miscellaneous_sesqui\4_2_3_3__sesquiterpene_alka\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999453\sections\1_body\3_4__materials_and_methods\1_4_1__study_site_\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999453\sections\1_body\3_4__materials_and_methods\2_4_2__soil_sampling_and_an\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999453\sections\1_body\3_4__materials_and_methods\3_4_3__plant_samples_collec\1_4_3_1__samples_collection\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999453\sections\1_body\3_4__materials_and_methods\3_4_3__plant_samples_collec\2_4_3_2__morphological_and_\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999453\sections\1_body\3_4__materials_and_methods\3_4_3__plant_samples_collec\3_4_3_3__phytochemicals_ana\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999453\sections\1_body\3_4__materials_and_methods\3_4_3__plant_samples_collec\4_4_3_4__antioxidant_activi\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999453\sections\1_body\3_4__materials_and_methods\3_4_3__plant_samples_collec\5_4_3_5__essential_oil_anal\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999453\sections\1_body\3_4__materials_and_methods\4_4_4__statistical_analysis\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\1_3_1__materials\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\2_3_2__extraction\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\3_3_3__analysis\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\3_3_3__analysis\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\4_3_4__analysis_gas_chromat\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\4_3_4__analysis_gas_chromat\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\5_3_5__cell_cultures_and_vi\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\5_3_5__cell_cultures_and_vi\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\6_3_6__cytotoxicity_assay\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\7_3_7__hemagglutination__ha\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\8_3_8__in_cell_western_assa\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\8_3_8__in_cell_western_assa\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7999460\sections\1_body\2_3__materials_and_methods\9_3_9__time_of_addition_ass\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\1_3_1__plant_material\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\1_3_1__plant_material\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\1_3_1__plant_material\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\2_3_2__isolations\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\2_3_2__isolations\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\3_3_3__analysis_of_mentha_e\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\3_3_3__analysis_of_mentha_e\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\3_3_3__analysis_of_mentha_e\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\3_3_3__analysis_of_mentha_e\4_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\3_3_3__analysis_of_mentha_e\5_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\3_3_3__analysis_of_mentha_e\6_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\3_3_3__analysis_of_mentha_e\7_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\4_3_4__assessment_of_biolog\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\4_3_4__assessment_of_biolog\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\4_3_4__assessment_of_biolog\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000339\sections\1_body\2_3__materials_and_methods\5_3_5__statistical_analysis\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000775\sections\1_body\2_3__materials_and_methods\1_3_1__plant_materials\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000775\sections\1_body\2_3__materials_and_methods\2_3_2__isolation_of_essenti\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000775\sections\1_body\2_3__materials_and_methods\3_3_3__gas_chromatography–m\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8000775\sections\1_body\2_3__materials_and_methods\4_3_4__antibacterial_and_an\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8003562\sections\1_body\3_4__material_and_methods\1_4_1__sources_of_informati\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8003562\sections\1_body\3_4__material_and_methods\2_4_2__distribution__data_c\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8003562\sections\1_body\3_4__material_and_methods\3_4_3__validation_methodolo\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8017187\sections\1_body\1_materials_and_methods\1_materials\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8017187\sections\1_body\1_materials_and_methods\2_extraction_and_characteri\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8017187\sections\1_body\1_materials_and_methods\3_preparation_of_a__flavus_\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8017187\sections\1_body\1_materials_and_methods\4_minimum_inhibitory_concen\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8017187\sections\1_body\1_materials_and_methods\5_examination_of_the_morpho\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8017187\sections\1_body\1_materials_and_methods\5_examination_of_the_morpho\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8017187\sections\1_body\1_materials_and_methods\6_determination_of_a__flavu\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8017187\sections\1_body\1_materials_and_methods\6_determination_of_a__flavu\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8017187\sections\1_body\1_materials_and_methods\7_extraction_and_determinat\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8017187\sections\1_body\1_materials_and_methods\7_extraction_and_determinat\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8017187\sections\1_body\1_materials_and_methods\8_statistics_and_data_analy\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\1_2_1__materials\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\1_2_1__materials\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\1_2_1__materials\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\1_2_2_1__synthesis_of_fe3o4\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\2_2_2_2__synthesis_of_pla_f\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\2_2_2_2__synthesis_of_pla_f\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\3_2_2_3__physiochemical_cha\1_x_ray_diffraction__xrd_\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\3_2_2_3__physiochemical_cha\2_fourier_transform_infrare\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\3_2_2_3__physiochemical_cha\3_thermogravimetric_analysi\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\3_2_2_3__physiochemical_cha\4_transmission_electron_mic\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\3_2_2_3__physiochemical_cha\5_dynamic_light_scattering_\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\3_2_2_3__physiochemical_cha\6_infrared_microscopy__irm_\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\3_2_2_3__physiochemical_cha\7_scanning_electron_microsc\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\4_2_2_4__in_vivo_biodistrib\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\4_2_2_4__in_vivo_biodistrib\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\4_2_2_4__in_vivo_biodistrib\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\5_2_2_5__in_vitro_evaluatio\1_biocompatibility_evaluati\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\5_2_2_5__in_vitro_evaluatio\1_biocompatibility_evaluati\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8036921\sections\1_body\1_2__materials_and_methods\2_2_2__methods\5_2_2_5__in_vitro_evaluatio\2_anti_adherent_potential\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8038092\sections\1_body\3_4__materials_and_methods\1_4_1__general_experimental\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8038092\sections\1_body\3_4__materials_and_methods\2_4_2__plant_material\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8038092\sections\1_body\3_4__materials_and_methods\3_4_3__isolation_of_essenti\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8038092\sections\1_body\3_4__materials_and_methods\4_4_4__isolation_and_nmr_an\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8038092\sections\1_body\3_4__materials_and_methods\5_4_5__identification_of_es\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8038092\sections\1_body\3_4__materials_and_methods\6_4_6__antibacterial_activi\1_4_6_1__bacterial_lines_an\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8038092\sections\1_body\3_4__materials_and_methods\6_4_6__antibacterial_activi\2_4_6_2__determination_of_t\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8038092\sections\1_body\3_4__materials_and_methods\7_4_7__cytotoxic_activity_o\1_4_7_1__cell_lines_and_cul\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8038092\sections\1_body\3_4__materials_and_methods\7_4_7__cytotoxic_activity_o\2_4_7_2__cell_viability_ass\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8038092\sections\1_body\3_4__materials_and_methods\7_4_7__cytotoxic_activity_o\2_4_7_2__cell_viability_ass\2_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC8038092\sections\1_body\3_4__materials_and_methods\7_4_7__cytotoxic_activity_o\2_4_7_2__cell_viability_ass\3_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7656780\sections\2_back\1_supplementary_material\1_p.txt
wrote sentence file C:\Users\DELL\eo_activity\PMC7684603\sections\1_body\1_experimental_procedure\2_plant_material\2_p.txt
tool: C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity
 [('antioxidant', 123), ('antifungal', 14), ('cytotoxicity', 13), ('anticoagulant', 6), ('disinfectant', 4), ('derivative', 3), ('hepatotoxicity', 2), ('antimalarial', 2)]
MOVE make_dictionary
<dictionary title='C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity'>
  <entry term=`antifungal'/>
  <entry term=`antioxidant'/>
  <entry term=`disinfectant'/>
  <entry term=`cytotoxicity'/>
  <entry term=`anticoagulant'/>
  <entry term=`derivative'/>
</dictionary>
finished search

C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect METHOD --proj eo_activity
running search main
args Namespace(dict=['activity'], sect=['METHOD'], proj=['eo_activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'METHOD', '--proj', 'eo_activity']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['METHOD'] <class 'list'>
projs ['eo_activity'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['METHOD'], proj=['eo_activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: activity
***** project C:\Users\DELL\eo_activity
_DESC <class 'str'> methods and/or materials; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *method*
SUBSUB <class 'str'> **
FILE <class 'str'> *p
SUFFIX <class 'str'> xml
glob {'_DESC': 'methods and/or materials; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*method*', 'SUBSUB': '**', 'FILE': '*p', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*method*/**/*p.xml
_DESC <class 'str'> methods and/or materials; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *material*
SUBSUB <class 'str'> **
FILE <class 'str'> *p
SUFFIX <class 'str'> xml
glob {'_DESC': 'methods and/or materials; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*material*', 'SUBSUB': '**', 'FILE': '*p', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*material*/**/*p.xml
files 1526
***** section_files METHOD 1526
file C:\Users\DELL\eo_activity\PMC7514039\sections\1_body\4_materials_and_methods\1_plant_material\1_p.xml
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
tool: C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity
 [('antioxidant', 121), ('antifungal', 14), ('cytotoxicity', 13), ('anticoagulant', 6), ('disinfectant', 4), ('derivative', 3), ('hepatotoxicity', 2), ('antimalarial', 2)]
MOVE make_dictionary
<dictionary title='C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity'>
  <entry term=`antifungal'/>
  <entry term=`antioxidant'/>
  <entry term=`disinfectant'/>
  <entry term=`cytotoxicity'/>
  <entry term=`anticoagulant'/>
  <entry term=`derivative'/>
</dictionary>
finished search

C:\Users\DELL\openDiagram\physchem\python>
C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --dict activity --sect introduction  --proj eo_activity
running search main
args Namespace(dict=['activity'], sect=['introduction'], proj=['eo_activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--dict', 'activity', '--sect', 'introduction', '--proj', 'eo_activity']
interpreted from cmd arg.demo None
project files not available for  C:\Users\DELL\openDiagram\python\diagrams\satish\cct
project files not available for  C:\Users\DELL\openVirus\miniproject\disease\1-part
project files not available for  C:\Users\DELL\worcester\synthesis
project files not available for  C:\Users\DELL\worcester\explosion
commandline args
dicts ['activity'] <class 'list'>
sects ['introduction'] <class 'list'>
projs ['eo_activity'] <class 'list'>
patterns None <class 'NoneType'>
args> Namespace(dict=['activity'], sect=['introduction'], proj=['eo_activity'], patt=None, demo=None, loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
dict_name: activity
***** project C:\Users\DELL\eo_activity
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *introduction*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*introduction*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*introduction*/**/*.xml
_DESC <class 'str'> introduction or background; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\eo_activity
TREE <class 'str'> *
SECTS <class 'str'> **
SUBSECT <class 'str'> *background*
SUBSUB <class 'str'> **
FILE <class 'str'> *
SUFFIX <class 'str'> xml
glob {'_DESC': 'introduction or background; looks for these words anywhere in file titles', 'PROJ': 'C:\\Users\\DELL\\eo_activity', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*background*', 'SUBSUB': '**', 'FILE': '*', 'SUFFIX': 'xml'} => C:\Users\DELL\eo_activity/*/**/*background*/**/*.xml
files 579
***** section_files introduction 579
file C:\Users\DELL\eo_activity\PMC7514039\sections\1_body\0_introduction\0_title.xml
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
findfont: Font family ['Helvetica'] not found. Falling back to DejaVu Sans.
tool: C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity
 [('antioxidant', 66), ('antifungal', 59), ('derivative', 9), ('antiprotozoal', 8), ('antiseptic', 7), ('cytotoxicity', 7), ('analgesic', 7), ('antiparasitic', 5), ('cosmetics', 4), ('anxiolytic', 4), ('antispasmodic', 3)]
MOVE make_dictionary
<dictionary title='C:\Users\DELL\CEVOpen\dictionary\eoActivity\eo_activity\activity'>
  <entry term=`antifungal'/>
  <entry term=`antioxidant'/>
  <entry term=`antiseptic'/>
  <entry term=`cosmetics'/>
  <entry term=`cytotoxicity'/>
  <entry term=`analgesic'/>
  <entry term=`antispasmodic'/>
  <entry term=`anxiolytic'/>
  <entry term=`antiparasitic'/>
  <entry term=`derivative'/>
  <entry term=`antiprotozoal'/>
</dictionary>
finished search

C:\Users\DELL\openDiagram\physchem\python>
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