Module Expr Str Import alias Import alias Import alias ImportFrom alias ImportFrom alias alias Assign NameStore Call NameLoad ListLoad Str keyword NameLoad Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num Assign NameStore Call NameLoad ListLoad Str keyword NameLoad Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Assign NameStore Call NameLoad ListLoad Str keyword NameLoad Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Assign NameStore Call NameLoad ListLoad Str keyword NameLoad Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str Expr Call AttributeLoad NameLoad attr Str keyword Num keyword Num keyword Num keyword Str ClassDef bases AttributeLoad NameLoad attr body FunctionDef arguments args NameParam defaults body Assign NameStore NameLoad TryExcept body Expr Call NameLoad NameLoad NameLoad handlers ExceptHandler type NameLoad body Assign NameStore NameLoad Expr Call AttributeLoad NameLoad attr NameLoad decorator_list FunctionDef arguments args NameParam defaults body Assign TupleStore NameStore NameStore NameStore NameStore NameStore Call NameLoad NameLoad NameLoad Expr Call AttributeLoad NameLoad attr NameLoad Num Expr Call AttributeLoad NameLoad attr NameLoad Num Expr Call AttributeLoad NameLoad attr NameLoad Num Expr Call AttributeLoad NameLoad attr Call NameLoad NameLoad Num Num decorator_list decorator_list If CompareEq NameLoad Str body Expr Call AttributeLoad NameLoad attr
N/A N/A 
Tests for bamutils extract
 N/A unittest N/A os N/A ngsutils.bam ngsutils.bam.innerdist bam_innerdist ngsutils.bam.t MockBam _matches N/A testbam1 N/A MockBam N/A chr1 insert_order True N/A N/A N/A testbam1 add_read foo1 tid 0 pos 100 aend 150 cigar 50M N/A N/A N/A testbam1 add_read foo2 tid 0 pos 200 aend 250 cigar 50M N/A N/A N/A testbam1 add_read foo3 tid 0 pos 300 aend 350 cigar 50M N/A N/A N/A testbam1 add_read foo4 tid 0 pos 400 aend 450 cigar 50M N/A N/A N/A testbam1 add_read foo5 tid 0 pos 400 aend 450 cigar 50M N/A N/A N/A testbam1 add_read foo6 tid -1 N/A testbam2 N/A MockBam N/A chr1 insert_order True N/A N/A N/A testbam2 add_read foo1 tid 0 pos 200 aend 250 cigar 50M N/A N/A N/A testbam2 add_read foo2 tid 0 pos 300 aend 350 cigar 50M N/A N/A N/A testbam2 add_read foo3 tid 0 pos 450 aend 500 cigar 50M N/A N/A N/A testbam2 add_read foo4 tid 0 pos 550 aend 600 cigar 50M N/A N/A N/A testbam2 add_read foo5 tid -1 N/A N/A N/A testbam2 add_read foo6 tid 0 pos 500 aend 550 cigar 50M N/A testbam3 N/A MockBam N/A chr1 insert_order True N/A N/A N/A testbam3 add_read foo1 tid 0 pos 100 aend 150 cigar 50M N/A N/A N/A testbam3 add_read foo2 tid 0 pos 200 aend 250 cigar 50M N/A N/A N/A testbam3 add_read foo3 tid 0 pos 300 aend 350 cigar 50M N/A N/A N/A testbam3 add_read foo4 tid 0 pos 400 aend 450 cigar 50M N/A testbam4 N/A MockBam N/A chr1 insert_order True N/A N/A N/A testbam4 add_read foo1 tid 0 pos 200 aend 250 cigar 50M N/A N/A N/A testbam4 add_read foo3 tid 0 pos 450 aend 500 cigar 50M N/A N/A N/A testbam4 add_read foo2 tid 0 pos 300 aend 350 cigar 50M N/A N/A N/A testbam4 add_read foo4 tid 0 pos 550 aend 600 cigar 50M InnerDistTest N/A N/A unittest TestCase N/A testError N/A N/A self N/A N/A N/A failed False N/A N/A N/A N/A bam_innerdist testbam3 testbam4 N/A N/A N/A ValueError N/A N/A failed True N/A N/A N/A self assertTrue failed N/A testDist N/A N/A self N/A N/A N/A N/A total proper mean stdev o_count N/A bam_innerdist testbam1 testbam2 N/A N/A N/A self assertEqual total 6 N/A N/A N/A self assertEqual proper 4 N/A N/A N/A self assertEqual mean 75.0 N/A N/A N/A self assertEqual N/A round stdev 5 28.86751 N/A N/A N/A N/A __name__ __main__ N/A N/A N/A N/A unittest main