Appending a column in xlsx file using Python Post: 303000079

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Top Forums Programming Appending a column in xlsx file using Python Post 303000079 by nans on Tuesday 4th of July 2017 04:13:51 AM

07-04-2017

Registered User

okay, I'm getting there now slowly! But why isn't it saving the results to the excel sheet ?

Code:

     for sheet_root, sheet_dirs, sheet_files in os.walk(sheet_directory):
        for sheet_file in sheet_files:
            if sheet_file.endswith('.xlsx'):
                #print(sheet_file)
                sheet_xl_file = os.path.join(sheet_root, sheet_file)
                wb = load_workbook(sheet_xl_file, data_only=True)
                ws = wb.get_sheet_by_name('Unannotated')
                pos_col_no = 'E'
                alt_col_no = 'G'
                ref_col_no = 'F'
                score_col_no = 'V'
                row_no = 4
                NG = ws[score_col_no + str(row_no)]
                #print row_no
                cell_pos = ws[pos_col_no + str(row_no)]
                cell_ref = ws[ref_col_no + str(row_no)]
                cell_alt = ws[alt_col_no + str(row_no)]
                cpos = Scores(POS=cell_pos.value, ALT=cell_alt.value, REF=cell_ref.value)
                print cpos  ##prints only row E4:G4:F4
                #while cpos:
                while row_no <=10:
                    if (dict_pos.has_key(cpos)):
                        NG = dict_pos[cpos]
                        print dict_pos[cpos]
                    else:
                        NG = 'Unknown_' + datetime.now().strftime("%B") + datetime.now().strftime("%Y")
                    row_no += 1
                    #print row_no
                    cell_pos = ws[pos_col_no + str(row_no)]
                    cell_ref = ws[ref_col_no + str(row_no)]
                    cell_alt = ws[alt_col_no + str(row_no)]
                    cpos = Scores(POS=cell_pos.value, ALT=cell_alt.value, REF=cell_ref.value)
                    print cpos
                    if (dict_pos.has_key(cpos)):
                        NG = dict_pos[cpos]
                    else:
                        NG = 'Unknown_' + datetime.now().strftime("%B") + datetime.now().strftime("%Y")
                        print NG
                wb.save(sheet_xl_file)
process_xl_sheets()

Code:

/usr/bin/python2.7 annotate_new_dict.py
Scores(POS=u'73', ALT=u'G', REF=u'A')
11
Scores(POS=u'114', ALT=u'T', REF=u'C')
1
Scores(POS=u'263', ALT=u'G', REF=u'A')
Unknown_July2017
Scores(POS=u'309', ALT=u'T', REF=u'C')
Unknown_July2017
Scores(POS=u'497', ALT=u'T', REF=u'C')
Unknown_July2017
Scores(POS=u'513', ALT=u'G', REF=u'GCA')
Unknown_July2017
Scores(POS=u'750', ALT=u'G', REF=u'A')
1
Scores(POS=u'1189', ALT=u'C', REF=u'T')

Process finished with exit code 0

nans

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ASNTOOL(1)						     NCBI Tools User's Manual							ASNTOOL(1)

NAME

       asntool - process ASN.1 module specifications

SYNOPSIS

       asntool [-] [-B filename] [-D N] [-G] [-I str] [-J type] [-K str] [-L str] [-M filename,...] [-P str] [-Q] [-S filename] [-T filename] [-V]
       [-X filename] [-Z]  [-b N]  [-d filename]  [-e filename]  [-f filename]	[-l filename]  -m filename  [-o filename]  [-p filename]  [-t str]
       [-v filename] [-w N] [-x filename]

DESCRIPTION

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OPTIONS

       A summary of options is included below.

       -      Print usage message

       -B filename
	      Generate objects and code in files named filename.*

       -D N   Debugging level for code generation:
	      0      No debugging (default)
	      1      Shallow debugging
	      2      Deep debugging
	      3-9    Same as 2

       -G     Generate object loader .c and .h files

       -I str Put "#include str" in generated .c file

       -J type
	      Register type type with object manager

       -K str In generated .c, force name of #included asn header to str

       -L str Label registered type as str

       -M filename,...
	      Search the ASN.1 modules in filename,... for external references

       -P str XML module prefix for DOCTYPE

       -Q     Use quoted syntax form for generated include files

       -S filename
	      Send debugging output to filename rather than stderr

       -T filename
	      Dump ASN.1 tree to filename

       -V     Force CHOICE objects to use custom structures rather than ValNodePtrs, for compatibility with some old hand-coded object loaders.

       -X filename
	      Write XML DTD to filename.  If filename is "m", print each module to a separate file.

       -Z     Bit twiddle for optional zero value base slots

       -b N   Use N-byte buffers (default = 1024; anything between 512 and 10000 is legal)

       -d filename
	      Read binary values from filename (requires -t)

       -e filename
	      Write binary values to filename

       -f filename
	      Write ASN.1 module to filename

       -l filename
	      Write ASN.1 loader to filename

       -m filename
	      Read ASN.1 module from filename

       -o filename
	      Write header to filename

       -p filename
	      Write print values to filename

       -t str Expect binary values to have type str

       -v filename
	      Read print values from filename

       -w N   Limit values in #defines to N bits (default = 31; anything between 31 and 128 is legal)

       -x filename
	      Write XML data to filename

AUTHOR

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								    2010-09-01								ASNTOOL(1)

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