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brittneybrinsfield
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pysam
Automatically exported from code.google.com/p/pysam
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segfault due to unimplemented __getattr__ in csamtools.PileupProxy.pileups
#55
GoogleCodeExporter
closed
9 years ago
2
pytype not defined for FloatType tags (one-line bugfix included)
#54
GoogleCodeExporter
closed
9 years ago
1
Suggestion: Function Samfile.count()
#53
GoogleCodeExporter
closed
9 years ago
3
Crash in interactive mode
#52
GoogleCodeExporter
closed
9 years ago
6
_FILE_OFFSET_BITS misdefined
#51
GoogleCodeExporter
closed
9 years ago
1
add info to assert samfile._hasIndex()
#50
GoogleCodeExporter
closed
9 years ago
1
errors with latest version of samtools (due to added files).
#49
GoogleCodeExporter
closed
9 years ago
1
samtools exceptions thrown are incorrect
#48
GoogleCodeExporter
closed
9 years ago
1
"tags" property does not work correctly on 64-bit systems
#47
GoogleCodeExporter
closed
9 years ago
1
StderrStore fails under load
#46
GoogleCodeExporter
closed
9 years ago
4
Opening sam as bam segfaults on fetch()
#45
GoogleCodeExporter
closed
9 years ago
1
Bam.fetch('chr1', 0, 0) segfaults
#44
GoogleCodeExporter
closed
9 years ago
1
pysam.sort aborts if the size of the BAM file requires temporary files
#43
GoogleCodeExporter
closed
9 years ago
3
logging related segmentation fault
#42
GoogleCodeExporter
closed
9 years ago
6
segmentation fault when trying to use a closed file
#41
GoogleCodeExporter
closed
9 years ago
3
type information of single-character string tags gets lost
#40
GoogleCodeExporter
opened
9 years ago
1
pysam with easy_install failed
#39
GoogleCodeExporter
closed
9 years ago
1
too many open file handles
#38
GoogleCodeExporter
closed
9 years ago
2
Error building tabix module
#37
GoogleCodeExporter
closed
9 years ago
2
Register package with pypi
#36
GoogleCodeExporter
closed
9 years ago
1
Fetch Iterators are not independent
#35
GoogleCodeExporter
closed
9 years ago
9
samfile.fetch() retrieves chromosome id based on 0 indexing
#34
GoogleCodeExporter
closed
9 years ago
4
"context manager protocol" for Samfile
#33
GoogleCodeExporter
closed
9 years ago
4
segfaults for non existing tags
#32
GoogleCodeExporter
closed
9 years ago
2
Samfile.pileup() extremely slow on files with many reference sequences
#31
GoogleCodeExporter
closed
9 years ago
8
import pysam does not work
#30
GoogleCodeExporter
closed
9 years ago
8
python 2.5 incompatibility
#29
GoogleCodeExporter
closed
9 years ago
2
AlignedRead.opt() for 'A'-tags returns ASCII decimal code, note value itself
#28
GoogleCodeExporter
closed
9 years ago
4
BAM fetch requires an index, even when only sequential access is required
#27
GoogleCodeExporter
closed
9 years ago
3
AlignedRead.rname is actually TID
#26
GoogleCodeExporter
closed
9 years ago
3
aln.rname and aln.mrna returns reference index, not reference name
#25
GoogleCodeExporter
closed
9 years ago
8
ex6.sam is referenced in tests/Makefile but not present in repo
#24
GoogleCodeExporter
closed
9 years ago
3
IOError: could not open index `in.bam`
#23
GoogleCodeExporter
closed
9 years ago
4
Seqfault when no optional tags are present
#22
GoogleCodeExporter
closed
9 years ago
3
Multiple 'PG' lines not supported
#21
GoogleCodeExporter
closed
9 years ago
3
Bug in Samfile.header property
#20
GoogleCodeExporter
closed
9 years ago
2
Fetch() on a in 'non binary' mode opened binary file crashes python
#19
GoogleCodeExporter
closed
9 years ago
4
Samfile.fetch() does not return unmapped reads
#18
GoogleCodeExporter
closed
9 years ago
1
Pysam.index does not check filename
#17
GoogleCodeExporter
closed
9 years ago
9
Memory leak
#16
GoogleCodeExporter
closed
9 years ago
2
Samfile.pileup has no way to call chromosomes
#15
GoogleCodeExporter
closed
9 years ago
1
preliminary release?
#14
GoogleCodeExporter
closed
9 years ago
2
Comment to fetch() in C-API docs
#13
GoogleCodeExporter
closed
9 years ago
1
accessing a closed samfile causes segmentation fault
#12
GoogleCodeExporter
closed
9 years ago
1
Off by one error
#11
GoogleCodeExporter
closed
9 years ago
1
Documentation of csamtools.pyx::IteratorRow
#10
GoogleCodeExporter
closed
9 years ago
4
Does remote access work
#9
GoogleCodeExporter
closed
9 years ago
1
Indexed fasta
#8
GoogleCodeExporter
closed
9 years ago
1
Sam/Bam
#7
GoogleCodeExporter
closed
9 years ago
1
Support writing of samfilse
#6
GoogleCodeExporter
closed
9 years ago
1
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