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23 Open 15 Closed
23 Open 15 Closed
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Issues list

CMake scripts fail to detect Arm - cannot build aarch64 out of the box
#49 opened Oct 22, 2024 by dslarm
Fails to compile on IBM Power architecture (ppc64le)
#47 opened Oct 6, 2023 by jblachly
can't install pufferfish
#46 opened Sep 25, 2023 by hungmai1984
Create and query an index of many human genomes?
#45 opened May 26, 2023 by jeremymsimon
Cedar segfaults with SAM files
#44 opened Oct 24, 2022 by hermidalc
1
PuffAligner significantly slower at mapping and thread usage is much less than specified when running with --compressedOutput
#42 opened Oct 24, 2022 by hermidalc
1
Output unmapped reads
#40 opened Oct 20, 2022 by hermidalc
Parallelize fixFasta
#39 opened Sep 11, 2022 by hermidalc
Add description to help that pufferfish index supports gzipped FASTA reference file
#35 opened Aug 18, 2022 by hermidalc
Pufferfish doesn't build within a conda environment (which has all the prerequisites) due to failed build of tslib from SeqLib
#34 opened Jun 27, 2022 by hermidalc
9
[Compile error] cannot open output file cedar: Is a directory
#31 opened Apr 28, 2022 by enricorox
Please consider converting ExternalProject_Add to git submodules
#29 opened Apr 12, 2022 by yurivict
installing without root
#27 opened Apr 9, 2022 by ksahlin
13
Puffaligner doesn't map read pairs to different references
#23 opened Oct 22, 2020 by apcamargo
2
[Question] Effect of the 'genomicReads' parameter
#22 opened Oct 21, 2020 by apcamargo
1
[Suggestion] Allow output to stdout enhancement
#21 opened Oct 21, 2020 by apcamargo
@mohsenzakeri @fataltes
2
Clarify usage for genome alignment enhancement fixed_in_develop
#20 opened Aug 25, 2020 by ssadedin
2
Support interleaved paired end FASTQs
#19 opened Aug 14, 2020 by nh13
1
Improve the help message, remove duplicate option descriptions, and get clarify options with the same flag
#18 opened Aug 14, 2020 by nh13
2
Align without the "-o" option should just output to standard output
#17 opened Aug 14, 2020 by nh13
1
make install does not work, pufferfish binary segfaults
#15 opened Jun 9, 2020 by mathog
20
FindJemalloc.cmake does not work on CentOS 8 fixed_in_develop
#14 opened Jun 9, 2020 by mathog
"Index requested greater than vector's size" when loading pufferfish index using salmon v1.0
#8 opened Dec 18, 2019 by mdshw5
22
ProTip! Exclude everything labeled bug with -label:bug.