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libcalignmentfile cimports #112

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libcalignmentfile cimports #112

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cba5635
fix other instance of pysam
jscaber Nov 24, 2021
2a75a44
fix other instance
jscaber Nov 24, 2021
cc011c5
final instance of libcalaligmen
jscaber Nov 24, 2021
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2 changes: 1 addition & 1 deletion cgat/BamTools/geneprofile.pyx
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Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
#cimport csamtools

from pysam.libchtslib cimport *
from pysam.libcalignmentfile cimport *
from pysam.libcalignmentfile cimport AlignmentFile, AlignedSegment
import pysam

import collections, array, struct, sys, itertools
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2 changes: 1 addition & 1 deletion cgat/BamTools/peakshape.pyx
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@@ -1,6 +1,6 @@
#cimport csamtools

from pysam.libcalignmentfile cimport *
from pysam.libcalignmentfile cimport AlignmentFile, AlignedSegment
import collections
import cgatcore.experiment as E
import numpy
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2 changes: 1 addition & 1 deletion cgat/GeneModelAnalysis.pyx
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@@ -1,7 +1,7 @@
# cython: profile=True
#cimport csamtools
from pysam.libchtslib cimport *
from pysam.libcalignmentfile cimport *
from pysam.libcalignmentfile cimport AlignedSegment
from posix.stdlib cimport drand48

import collections, array, struct
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