Comments (4)
This is likely caused by an uninitialized variable in the code. I have generated a fix for it in "fix-effective-length" branch. Could you to try it if you can compile the code with gcc >= 8?
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Sure I can test thanks
from chromap.
Hi @haowenz - great fix, I can confirm the index for chr20 now builds
from chromap.
Great to know. This would be merged into master in #64 and be effect in next release.
from chromap.
Related Issues (20)
- SAM output does not include mate-pair information with paired-end reads HOT 3
- [ERROR] barcode length is greater than 32 HOT 4
- [BUG] void chromap: :Index: :Load(): Assertion‘ index_ file != nullptr' failed. (Bulk ATAC-seq) HOT 2
- compared with Bowtie2. HOT 3
- Assertion `num_minimizers <= static_cast<size_t>(INT_MAX)' failed HOT 24
- Numbers of reads and barcodes don't match! HOT 1
- Didn't reach the end of sequence file, which might be corrupted! HOT 3
- [BUG] Segmentation fault (core dumped) HiC HOT 4
- very low number of mapped read when using --read-format HOT 15
- How I can get pairedTagAlign or bedpe output result from bulk ChIP-seq sequencing? HOT 4
- Error TLEN infomation at hic sam module HOT 3
- default MAPQ-threshold HOT 1
- Chromap miss some region when deal with Hetero Chromatin HOT 3
- An unknown error HOT 32
- [BUG] summary and log are confusing. HOT 6
- "Number of mapped reads" from log file HOT 3
- [Feature Request] report number of duplicated fragments in bulk HOT 4
- Different ValidPairs rate between chromap and bowtie2 in HiC data HOT 9
- how to keep multi-mapped paires for HiC data. HOT 1
- [BUG] output to /dev/stdout HOT 6
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