jkbonfield io_lib issues

jkbonfield / io_lib

Staden Package "io_lib" (sometimes referred to as libstaden-read by distributions). This contains code for reading and writing a variety of Bioinformatics / DNA Sequence formats.

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issues

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Outdated config.guess / config.sub in release tarball

#55 jmarshall opened 3 months ago
0
converting scf to ab1/abi

#54 PedroDaPos opened 10 months ago
2
Update files for release 1.15.

#53 jkbonfield closed 1 year ago
0
Fix CRAM QS values where ambiguity codes are in the reference.

#52 jkbonfield closed 1 year ago
0
Bug in aux field parsing

#51 rob-p closed 1 year ago
4
Issue when linking against htscodecs2 version 1.3.0

#50 tillea closed 2 years ago
3
Feature request: cram index

#49 matthdsm closed 2 years ago
8
Changing result between runs

#48 matthdsm closed 2 years ago
18
Documentation?

#47 blex-max opened 2 years ago
4
Scramble GCs references too eagerly and subsequently fails

#46 klmr closed 2 years ago
6
Any updates on cram v3.1 standard?

#45 matthdsm closed 3 years ago
2
Improve github actions config

#44 jkbonfield closed 3 years ago
0
Add very basic test program for the libmaus2/biobambam2 cram encoding interface

#43 gt1 opened 3 years ago
5
understanding cram_size and re-compressing crams

#42 h-2 closed 3 years ago
4
Make release 1.14.14

#41 jkbonfield closed 3 years ago
0
Updated htscodecs module to version 1.0.

#40 jkbonfield closed 3 years ago
0
io_lib CRAM encoding interface

#39 gt1 closed 3 years ago
12
Fix order of initialization calls in cram_open_by_callbacks (call cra…

#38 gt1 closed 3 years ago
0
Crash due to uninitialized field

#37 gt1 closed 3 years ago
8
Adding Power support(ppc64le) with ci and testing to the project for architecture independent

#36 asellappen closed 3 years ago
3
Installation Error in io_lib

#35 Abby3017 closed 3 years ago
2
fread() on reference file

#34 esamorodnitsky closed 4 years ago
5
define PATH_MAX in case it is not available

#33 mr-c closed 4 years ago
3
typo fixes courtesy Debian's lintian check

#32 mr-c closed 4 years ago
1
1.14.13 tests fail on 32-bit systems

#31 mr-c closed 4 years ago
2
configure and bzip2 library

#30 gt1 closed 4 years ago
1
Improved BAM's long-cigar functionality.

#29 jkbonfield closed 4 years ago
2
Handling of long (>65k) CIGAR strings

#28 rob-p closed 4 years ago
2
Add function cram_encoder_get_fd in cram_bambam.[ch]

#27 gt1 closed 4 years ago
2
Inteface for CRAM encoding mode

#26 gt1 closed 4 years ago
4
PACKAGE_* defines in io_lib_config.h

#25 gt1 closed 4 years ago
7
Allow scramble to discard tags

#24 jhaezebrouck closed 4 years ago
4
scramble works really nice

#23 sebhtml closed 4 years ago
5
Compiler warning fixes

#22 sebhtml closed 4 years ago
3
Help page fixes

#21 sebhtml closed 4 years ago
1
HTScodecs submodule commit does not exist

#20 fwip closed 4 years ago
2
current master does not build with current instructions

#19 maarten-k closed 5 years ago
1
strncpy calls

#18 gt1 closed 5 years ago
1
valgrind invalid access

#17 gt1 closed 5 years ago
5
USE_X

#16 gt1 closed 4 years ago
7
LDFLAGS as configure argument

#15 dkj closed 5 years ago
2
Add BAM and fastq size to benchmarks

#14 kyleabeauchamp closed 5 years ago
3
Linking with all compression libs at once: -lz -lcurl -lm -lpthread -ldeflate -llzma -lbz2 -ldeflate

#13 mmokrejs closed 5 years ago
2
Please provide configure.ac instead of configure.in

#12 mmokrejs closed 5 years ago
2
configure: Allowing --disable-static-libs instead of --enable-static=no

#11 mmokrejs closed 5 years ago
4
Use of REF_PATH

#10 keiranmraine closed 6 years ago
3
table more readable in markdown

#9 maarten-k closed 6 years ago
1
cram_filter

#8 jkbonfield closed 6 years ago
1
Range queries broken in 1.14.10

#7 jkbonfield closed 6 years ago
1
cram_index producing bad indexes

#6 sb10 closed 6 years ago
3