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python search_lib.py --demo luke #6

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Radhu903 opened this issue Apr 17, 2021 · 0 comments
Open

python search_lib.py --demo luke #6

Radhu903 opened this issue Apr 17, 2021 · 0 comments

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@Radhu903
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C:\Users\DELL\openDiagram\physchem\python>python search_lib.py --demo luke
running search main
args Namespace(dict=None, sect=None, proj=None, patt=None, demo=['luke'], loglevel='foo', plot=True, nosearch=False, maxbars=25, languages=['en'], debug=None)
cmd sys.argv ['search_lib.py', '--demo', 'luke']
interpreted from cmd arg.demo ['luke']
DEMOS
RUN DEMOS: ['luke']
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
dict_name: elements
AB12 = ^[A-Z]{1,}[^\s]*\d{1,}$
PATT:  AB12 ^[A-Z]{1,}[^\s]*\d{1,}$
all_capz = _ALLCAPS
_all = _ALL
***** project C:\Users\DELL\openDiagram\python\diagrams\luke\ffml20
_DESC <class 'str'> methods and/or materials; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\openDiagram\python\diagrams\luke\ffml20
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\\openDiagram\\python\\diagrams\\luke\\ffml20', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*method*', 'SUBSUB': '**', 'FILE': '*p', 'SUFFIX': 'xml'} => C:\Users\DELL\openDiagram\python\diagrams\luke\ffml20/*/**/*method*/**/*p.xml
_DESC <class 'str'> methods and/or materials; looks for these words anywhere in file titles
PROJ <class 'str'> C:\Users\DELL\openDiagram\python\diagrams\luke\ffml20
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\\openDiagram\\python\\diagrams\\luke\\ffml20', 'TREE': '*', 'SECTS': '**', 'SUBSECT': '*material*', 'SUBSUB': '**', 'FILE': '*p', 'SUFFIX': 'xml'} => C:\Users\DELL\openDiagram\python\diagrams\luke\ffml20/*/**/*material*/**/*p.xml
files 220
***** section_files METHOD 220
file C:\Users\DELL\openDiagram\python\diagrams\luke\ffml20\PMC7448526\sections\1_body\1_methodology\1__operando_diffuse_reflect\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\dictionary\ami3\elements
 [('oxygen', 6), ('potassium', 6), ('silicon', 5), ('sodium', 5), ('nitrogen', 4), ('hydrogen', 4), ('copper', 4), ('iron', 3), ('gold', 2), ('lead', 2), ('carbon', 2), ('calcium', 2), ('sulfur', 2)]
MOVE make_dictionary
<dictionary title='C:\Users\DELL\dictionary\ami3\elements'>
  <entry term=`oxygen'/>
  <entry term=`silicon'/>
  <entry term=`potassium'/>
  <entry term=`nitrogen'/>
  <entry term=`hydrogen'/>
  <entry term=`iron'/>
  <entry term=`copper'/>
  <entry term=`sodium'/>
</dictionary>
tool: AB12
 [('GROMOS54a7', 12), ('CHARMM36', 12), ('T12', 8), ('H-ZSM-5', 3), ('Becke97-3', 2), ('C18', 2), ('AQ-C18', 2), ('N/3', 2), ('S2S4', 2), ('UV-1800', 2), ('L-7100', 2), ('L-7455', 2), ('D-7000', 2), ('OPLS3', 2), ('MDA-MB-231', 2), ('Su-86-86', 2)]
MOVE make_dictionary
<dictionary title='AB12'>
  <entry term=`h-zsm-5'/>
  <entry term=`t12'/>
  <entry term=`gromos54a7'/>
  <entry term=`charmm36'/>
</dictionary>
tool: _ALLCAPS
 [('CD-MOF', 22), ('SCU', 22), ('USA)', 17), ('HPLC', 16), ('USA).\n', 16), ('DFT', 15), ('MA,', 14), ('SCU@CD-MOF', 14), ('CSH', 14), ('DOX', 13), ('CHARMM36', 12), ('NMR', 12), ('CA,', 10), ('TPSA', 10), ('FTIR', 10), ('III,', 9), ('3COOH', 9), ('T12', 8), ('DOPC', 8), ('POPC', 8), ('SPC/E', 8), ('(AOS', 8), ('IV,', 8), ('KOH', 7), ('-CD', 6), ('DEX', 6), ('NGI', 6), ('BBB', 6), ('BBB.\n', 6), ('SMD', 6), ('MSE', 6), ('K),', 6), ('2O/UC', 6), ('TFA)', 6), ('13C', 6), ('GROMACS', 5), ('ESI', 4), ('SCU:CD-MOF', 4), ('SCU@DEX@CD-MOF', 4), ('DEX@CD-MOF', 4), ('TGA', 4), ('MN,', 4), ('EMG', 4), ('CHARMM-GUI', 4), ('S1).\n', 4), ('ATB', 4), ('LINCS', 4), ('(MD)', 4), ('OPLS-AA', 4), ('(P)', 4), ('B.E.T.\n', 4), ('II)', 4), ('II),', 4), ('DVS', 4), ('MATLAB', 4), ('HRESIMS', 4), ('H-ZSM-5', 3), ('(PBE)', 3), ('NPT', 3), ('(KOH),', 3), ('(PEG', 3), ('J&K', 3), ('DSC', 3), ('TIP3P', 3), ('(ATR)', 3), ('(FTIR)', 3), ('NVT', 3), ('(NPT)', 3), ('CSH.\n', 3), ('IL,', 3), ('(PME)', 3), ('C),', 3), ('DRIFTS', 2), ('(QM/MM)', 2), ('H-ZSM-5.\n', 2), ('MFI', 2), ('QM/MM', 2), ('(XC)', 2), ('B97-D,', 2), ('GAMESS-UK', 2), ('TZVP', 2), ('(SCF)', 2), ('SCF', 2), ('DL_POLY,', 2), ('(L-BFGS)', 2), ('II,', 2), ('PBE', 2), ('LAMMPS', 2), ('PEG', 2), ('CD-MOF.\n', 2), ('(RCT', 2), ('IKA,', 2), ('SCU.\n', 2), ('(DZF-6050,', 2), ('SCU@CD-MOF.\n', 2), ('C18', 2), ('HPLCMS/MS,', 2), ('SCU,', 2), ('SEM', 2), ('LE,', 2), ('PXRD', 2), ('AXS', 2), ('AL,', 2), ('(Q2000,', 2), ('DE,', 2), ('SR-FTIR', 2), ('CID', 2), ('-CD-MOF', 2), ('(MS,', 2), ('P1.\n', 2), ('M1)', 2), ('V1,', 2), ('M2.\n', 2), ('V2.\n', 2), ('(CI)', 2), ('W1),', 2), ('W2).\n', 2), ('(NGI-094,', 2), ('UK),', 2), ('W3),', 2), ('CD-MOF,', 2), ('SCU@CD-MOF,', 2), ('NGI.\n', 2), ('HPLC-ELSD', 2), ('AQ-C18', 2), ('EEG', 2), ('S1),', 2), ('GROMOS', 2), ('HF/STO-3G', 2), ('B3LYP/6-31G*.\n', 2), ('DOPC,', 2), ('CHARMM', 2), ('S3).\n', 2), ('S6.\n', 2), ('UFF', 2), ('SOAP', 2), ('(DSC)', 2), ('(NVT)', 2), ('CNT', 2), ('(MMA),', 2), ('(MEK),', 2), ('(AIBN)', 2), ('(THF)', 2), ('ACROS', 2), ('C.\n', 2), ('(DLS)', 2), ('N/3', 2), ('SVM', 2), ('(III)', 2), ('(II)', 2), ('USA))', 2), ('DLS', 2), ('3COOH)', 2), ('TXRF.\n', 2), ('PAMAM', 2), ('EDA', 2), ('(XRD;', 2), ('(XPS;', 2), ('DLD', 2), ('S2S4).\n', 2), ('XPS', 2), ('AOS', 2), ('S2S4', 2), ('S1.\n', 2), ('(DVS)', 2), ('XRD.\n', 2), ('(RH)', 2), ('S5).\n', 2), ('(UC).\n', 2), ('(E)', 2), ('XRD', 2), ('70/V', 2), ('RH,', 2), ('S6).\n', 2), ('S7).\n', 2), ('MHG32).\n', 2), ('(LI-7000,', 2), ('S6),', 2), ('(MCR-ALS)', 2), ('MCR', 2), ('C).\n', 2), ('(XRD).\n', 2), ('576O', 2), ('2O)', 2), ('UC.\n', 2), ('NPT)', 2), ('557Q(', 2), ('2O/UC),', 2), ('S8).\n', 2), ('DMSO-', 2), ('LRESIMS', 2), ('(HRESIMS)', 2), ('TOF', 2), ('(UV)', 2), ('UV-1800', 2), ('(IR)', 2), ('L-7100', 2), ('L-7455', 2), ('PDA', 2), ('D-7000', 2), ('WI,', 2), ('MD,', 2), ('(TFA,', 2), ('QM1179)', 2), ('SCUBA', 2), ('NSW,', 2), ('(QM', 2), ('G331842)', 2), ('2O/34%', 2), ('2O/45%', 2), ('FLR', 2), ('10H', 2), ('13N', 2), ('6OS,', 2), ('MCMM', 2), ('OPLS3', 2), ('(GIAO)', 2), ('(3D7)', 2), ('BT-474,', 2), ('MCF-10A,', 2), ('MDA-MB-231', 2), ('PMDA', 2), ('HITACHI,', 2), ('BRUKER,', 2)]
MOVE make_dictionary
<dictionary title='_ALLCAPS'>
  <entry term=`h-zsm-5'/>
  <entry term=`t12'/>
  <entry term=`esi'/>
  <entry term=`dft'/>
  <entry term=`(pbe)'/>
  <entry term=`npt'/>
  <entry term=`(koh),'/>
  <entry term=`(peg'/>
  <entry term=`hplc'/>
  <entry term=`j&k'/>
  <entry term=`ma,'/>
  <entry term=`usa).
'/>
  <entry term=`cd-mof'/>
  <entry term=`-cd'/>
  <entry term=`koh'/>
  <entry term=`scu'/>
  <entry term=`scu:cd-mof'/>
  <entry term=`scu@cd-mof'/>
  <entry term=`scu@dex@cd-mof'/>
  <entry term=`dex'/>
  <entry term=`dex@cd-mof'/>
  <entry term=`ca,'/>
  <entry term=`usa)'/>
  <entry term=`tga'/>
  <entry term=`mn,'/>
  <entry term=`dsc'/>
  <entry term=`ngi'/>
  <entry term=`emg'/>
  <entry term=`tpsa'/>
  <entry term=`charmm36'/>
  <entry term=`bbb'/>
  <entry term=`bbb.
'/>
  <entry term=`dopc'/>
  <entry term=`charmm-gui'/>
  <entry term=`s1).
'/>
  <entry term=`atb'/>
  <entry term=`popc'/>
  <entry term=`tip3p'/>
  <entry term=`smd'/>
  <entry term=`lincs'/>
  <entry term=`gromacs'/>
  <entry term=`dox'/>
  <entry term=`(md)'/>
  <entry term=`opls-aa'/>
  <entry term=`nmr'/>
  <entry term=`(atr)'/>
  <entry term=`(ftir)'/>
  <entry term=`nvt'/>
  <entry term=`(npt)'/>
  <entry term=`spc/e'/>
  <entry term=`csh.
'/>
  <entry term=`csh'/>
  <entry term=`mse'/>
  <entry term=`iii,'/>
  <entry term=`3cooh'/>
  <entry term=`il,'/>
  <entry term=`(pme)'/>
  <entry term=`(p)'/>
  <entry term=`ftir'/>
  <entry term=`b.e.t.
'/>
  <entry term=`k),'/>
  <entry term=`(aos'/>
  <entry term=`iv,'/>
  <entry term=`ii)'/>
  <entry term=`ii),'/>
  <entry term=`dvs'/>
  <entry term=`matlab'/>
  <entry term=`2o/uc'/>
  <entry term=`c),'/>
  <entry term=`hresims'/>
  <entry term=`tfa)'/>
  <entry term=`13c'/>
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@Radhu903