diff --git a/transposonmapper/data_files/files4test/SRR062634.filt_trimmed.sorted.bam.wig b/transposonmapper/data_files/files4test/SRR062634.filt_trimmed.sorted.bam.wig index 3c6ddc8..d690870 100644 --- a/transposonmapper/data_files/files4test/SRR062634.filt_trimmed.sorted.bam.wig +++ b/transposonmapper/data_files/files4test/SRR062634.filt_trimmed.sorted.bam.wig @@ -1,5 +1,5 @@ track type=wiggle_0 ,maxheightPixels=60 name=SRR062634.filt_trimmed.sorted.bam -VariableStep chrom=chrref|NC_001133| +variableStep chrom=chrref|NC_001133| 23708 1 23719 1 31487 1 @@ -8,7 +8,7 @@ VariableStep chrom=chrref|NC_001133| 120156 1 120186 1 126867 2 -VariableStep chrom=chrref|NC_001134| +variableStep chrom=chrref|NC_001134| 68281 1 68324 2 72368 1 @@ -39,7 +39,7 @@ VariableStep chrom=chrref|NC_001134| 681992 2 682025 1 682029 2 -VariableStep chrom=chrref|NC_001135| +variableStep chrom=chrref|NC_001135| 42004 1 57049 1 57086 1 @@ -49,7 +49,7 @@ VariableStep chrom=chrref|NC_001135| 247924 2 247930 1 247952 3 -VariableStep chrom=chrref|NC_001136| +variableStep chrom=chrref|NC_001136| 133 1 33361 1 57025 1 @@ -100,10 +100,10 @@ VariableStep chrom=chrref|NC_001136| 1357513 4 1412423 3 1412424 1 -VariableStep chrom=chrref|NC_001137| +variableStep chrom=chrref|NC_001137| 79258 1 86481 3 -VariableStep chrom=chrref|NC_001138| +variableStep chrom=chrref|NC_001138| 210337 1 210344 5 210350 4 @@ -113,7 +113,7 @@ VariableStep chrom=chrref|NC_001138| 210372 1 210396 43 210412 1 -VariableStep chrom=chrref|NC_001139| +variableStep chrom=chrref|NC_001139| 69350 8 69357 5 69383 1 @@ -164,7 +164,7 @@ VariableStep chrom=chrref|NC_001139| 808415 1 1010880 1 1010911 2 -VariableStep chrom=chrref|NC_001140| +variableStep chrom=chrref|NC_001140| 81890 1 81893 2 111561 1 @@ -186,7 +186,7 @@ VariableStep chrom=chrref|NC_001140| 549757 2 549762 3 549764 1 -VariableStep chrom=chrref|NC_001141| +variableStep chrom=chrref|NC_001141| 105779 1 105789 1 128704 1 @@ -195,7 +195,7 @@ VariableStep chrom=chrref|NC_001141| 154019 1 163218 1 254921 2 -VariableStep chrom=chrref|NC_001142| +variableStep chrom=chrref|NC_001142| 141069 1 470174 1 519258 1 @@ -214,7 +214,7 @@ VariableStep chrom=chrref|NC_001142| 701728 1 701747 5 701767 2 -VariableStep chrom=chrref|NC_001143| +variableStep chrom=chrref|NC_001143| 22037 2 22040 2 22079 1 @@ -231,7 +231,7 @@ VariableStep chrom=chrref|NC_001143| 518141 1 613752 1 635450 2 -VariableStep chrom=chrref|NC_001144| +variableStep chrom=chrref|NC_001144| 41219 1 41265 1 48856 1 @@ -266,7 +266,7 @@ VariableStep chrom=chrref|NC_001144| 829458 1 873640 1 873669 2 -VariableStep chrom=chrref|NC_001145| +variableStep chrom=chrref|NC_001145| 40166 2 87027 1 87060 2 @@ -279,7 +279,7 @@ VariableStep chrom=chrref|NC_001145| 822618 1 822626 16 822628 1 -VariableStep chrom=chrref|NC_001146| +variableStep chrom=chrref|NC_001146| 135871 1 357010 4 359341 26 @@ -309,7 +309,7 @@ VariableStep chrom=chrref|NC_001146| 772656 1 784227 1 784259 2 -VariableStep chrom=chrref|NC_001147| +variableStep chrom=chrref|NC_001147| 13998 1 45693 4 63057 1 @@ -338,7 +338,7 @@ VariableStep chrom=chrref|NC_001147| 944460 1 954134 4 954135 1 -VariableStep chrom=chrref|NC_001148| +variableStep chrom=chrref|NC_001148| 9540 1 138286 1 138292 1 @@ -352,7 +352,7 @@ VariableStep chrom=chrref|NC_001148| 536772 1 536777 1 536780 2 -VariableStep chrom=chrref|NC_001224| +variableStep chrom=chrref|NC_001224| 1212 1 2847 1 3267 1 diff --git a/transposonmapper/exporting/save_as_wig.py b/transposonmapper/exporting/save_as_wig.py index 16658b8..c82de59 100644 --- a/transposonmapper/exporting/save_as_wig.py +++ b/transposonmapper/exporting/save_as_wig.py @@ -73,7 +73,7 @@ def save_as_wig(wigfile, tncoordinates_array, ref_tid, readnumb_array): filename = os.path.splitext(base)[0] f.write("track type=wiggle_0 ,maxheightPixels=60 name=" + filename + "\n") for kk in ref_names: - f.write("VariableStep chrom=chr" + kk + "\n") + f.write("variableStep chrom=chr" + kk + "\n") index = np.where( tncoordinateswig_duplicatesremoved_array[:, 0] == int(ref_tid[kk] + 1)