bowtie-examples - amd64

Documentation

Binaries

bowtie-align-l-debug

compile units

unassigned

ebwt_search.cpp

Class

./ebwt_search.cpp.002t.class

Gimple

GKD

OBJ

search_1mm_phase1.c

search_1mm_phase2.c

search_23mm_phase1.c

search_23mm_phase2.c

search_23mm_phase3.c

search_exact.c

search_seeded_phase1.c

search_seeded_phase2.c

search_seeded_phase3.c

search_seeded_phase4.c

ccnt_lut.cpp

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OBJ

unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

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ebwt.cpp

Class

./ebwt.cpp.002t.class

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tinythread.cpp

Class

./tinythread.cpp.002t.class

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qual.cpp

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pat.cpp

Class

./pat.cpp.002t.class

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ebwt_search_util.cpp

Class

./ebwt_search_util.cpp.002t.class

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ref_aligner.cpp

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log.cpp

Class

./log.cpp.002t.class

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hit_set.cpp

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./hit_set.cpp.002t.class

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refmap.cpp

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./refmap.cpp.002t.class

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annot.cpp

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./annot.cpp.002t.class

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sam.cpp

Class

./sam.cpp.002t.class

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color.cpp

Class

./color.cpp.002t.class

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color_dec.cpp

Class

./color_dec.cpp.002t.class

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unassigned

hit.cpp

Class

./hit.cpp.002t.class

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OBJ

unassigned

bowtie_main.cpp

Class

./bowtie_main.cpp.002t.class

Gimple

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OBJ

includes

unassigned

ebwt_search.cpp

search_1mm_phase1.c

search_1mm_phase2.c

search_23mm_phase1.c

search_23mm_phase2.c

search_23mm_phase3.c

search_exact.c

search_seeded_phase1.c

search_seeded_phase2.c

search_seeded_phase3.c

search_seeded_phase4.c

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

qual.cpp

unassigned

pat.cpp

unassigned

ebwt_search_util.cpp

ref_aligner.cpp

log.cpp

unassigned

hit_set.cpp

unassigned

refmap.cpp

unassigned

annot.cpp

unassigned

sam.cpp

unassigned

color.cpp

unassigned

color_dec.cpp

unassigned

hit.cpp

unassigned

bowtie_main.cpp

libraries

manual

bowtie-inspect-l-debug

compile units

unassigned

bowtie_inspect.cpp

Class

./bowtie_inspect.cpp.002t.class

Gimple

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ccnt_lut.cpp

Gimple

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unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

Gimple

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OBJ

unassigned

ebwt.cpp

Class

./ebwt.cpp.002t.class

Gimple

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tinythread.cpp

Class

./tinythread.cpp.002t.class

Gimple

GKD

OBJ

includes

unassigned

bowtie_inspect.cpp

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

libraries

manual

bowtie-build-l

compile units

unassigned

ebwt_build.cpp

Class

./ebwt_build.cpp.002t.class

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ccnt_lut.cpp

Gimple

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unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

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OBJ

unassigned

ebwt.cpp

Class

./ebwt.cpp.002t.class

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tinythread.cpp

Class

./tinythread.cpp.002t.class

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OBJ

unassigned

bowtie_build_main.cpp

Class

./bowtie_build_main.cpp.002t.class

Gimple

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includes

unassigned

ebwt_build.cpp

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

unassigned

bowtie_build_main.cpp

libraries

manual

bowtie-align-l

compile units

unassigned

ebwt_search.cpp

Class

./ebwt_search.cpp.002t.class

Gimple

GKD

OBJ

search_1mm_phase1.c

search_1mm_phase2.c

search_23mm_phase1.c

search_23mm_phase2.c

search_23mm_phase3.c

search_exact.c

search_seeded_phase1.c

search_seeded_phase2.c

search_seeded_phase3.c

search_seeded_phase4.c

ccnt_lut.cpp

Gimple

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OBJ

unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

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unassigned

ebwt.cpp

Class

./ebwt.cpp.002t.class

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tinythread.cpp

Class

./tinythread.cpp.002t.class

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qual.cpp

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unassigned

pat.cpp

Class

./pat.cpp.002t.class

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unassigned

ebwt_search_util.cpp

Class

./ebwt_search_util.cpp.002t.class

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ref_aligner.cpp

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log.cpp

Class

./log.cpp.002t.class

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unassigned

hit_set.cpp

Class

./hit_set.cpp.002t.class

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unassigned

refmap.cpp

Class

./refmap.cpp.002t.class

Gimple

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OBJ

unassigned

annot.cpp

Class

./annot.cpp.002t.class

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unassigned

sam.cpp

Class

./sam.cpp.002t.class

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unassigned

color.cpp

Class

./color.cpp.002t.class

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unassigned

color_dec.cpp

Class

./color_dec.cpp.002t.class

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unassigned

hit.cpp

Class

./hit.cpp.002t.class

Gimple

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OBJ

unassigned

bowtie_main.cpp

Class

./bowtie_main.cpp.002t.class

Gimple

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OBJ

includes

unassigned

ebwt_search.cpp

search_1mm_phase1.c

search_1mm_phase2.c

search_23mm_phase1.c

search_23mm_phase2.c

search_23mm_phase3.c

search_exact.c

search_seeded_phase1.c

search_seeded_phase2.c

search_seeded_phase3.c

search_seeded_phase4.c

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

qual.cpp

unassigned

pat.cpp

unassigned

ebwt_search_util.cpp

ref_aligner.cpp

log.cpp

unassigned

hit_set.cpp

unassigned

refmap.cpp

unassigned

annot.cpp

unassigned

sam.cpp

unassigned

color.cpp

unassigned

color_dec.cpp

unassigned

hit.cpp

unassigned

bowtie_main.cpp

libraries

manual

bowtie-build-s

compile units

unassigned

ebwt_build.cpp

Class

./ebwt_build.cpp.002t.class

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ccnt_lut.cpp

Gimple

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unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

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unassigned

ebwt.cpp

Class

./ebwt.cpp.002t.class

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tinythread.cpp

Class

./tinythread.cpp.002t.class

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OBJ

unassigned

bowtie_build_main.cpp

Class

./bowtie_build_main.cpp.002t.class

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includes

unassigned

ebwt_build.cpp

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

unassigned

bowtie_build_main.cpp

libraries

manual

bowtie-inspect-l

compile units

unassigned

bowtie_inspect.cpp

Class

./bowtie_inspect.cpp.002t.class

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ccnt_lut.cpp

Gimple

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unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

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unassigned

ebwt.cpp

Class

./ebwt.cpp.002t.class

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tinythread.cpp

Class

./tinythread.cpp.002t.class

Gimple

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OBJ

includes

unassigned

bowtie_inspect.cpp

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

libraries

manual

bowtie-inspect-s-debug

compile units

unassigned

bowtie_inspect.cpp

Class

./bowtie_inspect.cpp.002t.class

Gimple

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OBJ

ccnt_lut.cpp

Gimple

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unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

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unassigned

ebwt.cpp

Class

./ebwt.cpp.002t.class

Gimple

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tinythread.cpp

Class

./tinythread.cpp.002t.class

Gimple

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OBJ

includes

unassigned

bowtie_inspect.cpp

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

libraries

manual

bowtie-build-s-debug

compile units

unassigned

ebwt_build.cpp

Class

./ebwt_build.cpp.002t.class

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ccnt_lut.cpp

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unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

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unassigned

ebwt.cpp

Class

./ebwt.cpp.002t.class

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tinythread.cpp

Class

./tinythread.cpp.002t.class

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OBJ

unassigned

bowtie_build_main.cpp

Class

./bowtie_build_main.cpp.002t.class

Gimple

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includes

unassigned

ebwt_build.cpp

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

unassigned

bowtie_build_main.cpp

libraries

manual

bowtie-build-l-debug

compile units

unassigned

ebwt_build.cpp

Class

./ebwt_build.cpp.002t.class

Gimple

GKD

OBJ

ccnt_lut.cpp

Gimple

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unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

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unassigned

ebwt.cpp

Class

./ebwt.cpp.002t.class

Gimple

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tinythread.cpp

Class

./tinythread.cpp.002t.class

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OBJ

unassigned

bowtie_build_main.cpp

Class

./bowtie_build_main.cpp.002t.class

Gimple

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OBJ

includes

unassigned

ebwt_build.cpp

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

unassigned

bowtie_build_main.cpp

libraries

manual

bowtie-align-s-debug

compile units

unassigned

ebwt_search.cpp

Class

./ebwt_search.cpp.002t.class

Gimple

GKD

OBJ

search_1mm_phase1.c

search_1mm_phase2.c

search_23mm_phase1.c

search_23mm_phase2.c

search_23mm_phase3.c

search_exact.c

search_seeded_phase1.c

search_seeded_phase2.c

search_seeded_phase3.c

search_seeded_phase4.c

ccnt_lut.cpp

Gimple

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OBJ

unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

Gimple

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

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unassigned

ebwt.cpp

Class

./ebwt.cpp.002t.class

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tinythread.cpp

Class

./tinythread.cpp.002t.class

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qual.cpp

Gimple

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unassigned

pat.cpp

Class

./pat.cpp.002t.class

Gimple

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unassigned

ebwt_search_util.cpp

Class

./ebwt_search_util.cpp.002t.class

Gimple

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ref_aligner.cpp

Gimple

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log.cpp

Class

./log.cpp.002t.class

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unassigned

hit_set.cpp

Class

./hit_set.cpp.002t.class

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refmap.cpp

Class

./refmap.cpp.002t.class

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annot.cpp

Class

./annot.cpp.002t.class

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sam.cpp

Class

./sam.cpp.002t.class

Gimple

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unassigned

color.cpp

Class

./color.cpp.002t.class

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unassigned

color_dec.cpp

Class

./color_dec.cpp.002t.class

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unassigned

hit.cpp

Class

./hit.cpp.002t.class

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unassigned

bowtie_main.cpp

Class

./bowtie_main.cpp.002t.class

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includes

unassigned

ebwt_search.cpp

search_1mm_phase1.c

search_1mm_phase2.c

search_23mm_phase1.c

search_23mm_phase2.c

search_23mm_phase3.c

search_exact.c

search_seeded_phase1.c

search_seeded_phase2.c

search_seeded_phase3.c

search_seeded_phase4.c

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

qual.cpp

unassigned

pat.cpp

unassigned

ebwt_search_util.cpp

ref_aligner.cpp

log.cpp

unassigned

hit_set.cpp

unassigned

refmap.cpp

unassigned

annot.cpp

unassigned

sam.cpp

unassigned

color.cpp

unassigned

color_dec.cpp

unassigned

hit.cpp

unassigned

bowtie_main.cpp

libraries

manual

bowtie-inspect-s

compile units

unassigned

bowtie_inspect.cpp

Class

./bowtie_inspect.cpp.002t.class

Gimple

GKD

OBJ

ccnt_lut.cpp

Gimple

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unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

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unassigned

ebwt.cpp

Class

./ebwt.cpp.002t.class

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tinythread.cpp

Class

./tinythread.cpp.002t.class

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includes

unassigned

bowtie_inspect.cpp

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

libraries

manual

bowtie-align-s

compile units

unassigned

ebwt_search.cpp

Class

./ebwt_search.cpp.002t.class

Gimple

GKD

OBJ

search_1mm_phase1.c

search_1mm_phase2.c

search_23mm_phase1.c

search_23mm_phase2.c

search_23mm_phase3.c

search_exact.c

search_seeded_phase1.c

search_seeded_phase2.c

search_seeded_phase3.c

search_seeded_phase4.c

ccnt_lut.cpp

Gimple

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OBJ

unassigned

ref_read.cpp

Class

./ref_read.cpp.002t.class

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alphabet.cpp

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shmem.cpp

Class

./shmem.cpp.002t.class

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edit.cpp

Class

./edit.cpp.002t.class

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unassigned

ebwt.cpp

Class

./ebwt.cpp.002t.class

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tinythread.cpp

Class

./tinythread.cpp.002t.class

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qual.cpp

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pat.cpp

Class

./pat.cpp.002t.class

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unassigned

ebwt_search_util.cpp

Class

./ebwt_search_util.cpp.002t.class

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ref_aligner.cpp

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log.cpp

Class

./log.cpp.002t.class

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hit_set.cpp

Class

./hit_set.cpp.002t.class

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refmap.cpp

Class

./refmap.cpp.002t.class

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annot.cpp

Class

./annot.cpp.002t.class

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unassigned

sam.cpp

Class

./sam.cpp.002t.class

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unassigned

color.cpp

Class

./color.cpp.002t.class

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unassigned

color_dec.cpp

Class

./color_dec.cpp.002t.class

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unassigned

hit.cpp

Class

./hit.cpp.002t.class

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unassigned

bowtie_main.cpp

Class

./bowtie_main.cpp.002t.class

Gimple

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includes

unassigned

ebwt_search.cpp

search_1mm_phase1.c

search_1mm_phase2.c

search_23mm_phase1.c

search_23mm_phase2.c

search_23mm_phase3.c

search_exact.c

search_seeded_phase1.c

search_seeded_phase2.c

search_seeded_phase3.c

search_seeded_phase4.c

ccnt_lut.cpp

unassigned

ref_read.cpp

alphabet.cpp

shmem.cpp

edit.cpp

unassigned

ebwt.cpp

tinythread.cpp

qual.cpp

unassigned

pat.cpp

unassigned

ebwt_search_util.cpp

ref_aligner.cpp

log.cpp

unassigned

hit_set.cpp

unassigned

refmap.cpp

unassigned

annot.cpp

unassigned

sam.cpp

unassigned

color.cpp

unassigned

color_dec.cpp

unassigned

hit.cpp

unassigned

bowtie_main.cpp

libraries

manual