cancerit / CaVEMan

SNV expectation maximisation based mutation calling algorithm aimed at detecting somatic mutations in paired (tumour/normal) cancer samples. Supports both bam and cram format via htslib

http://cancerit.github.io/CaVEMan

GNU Affero General Public License v3.0

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generateCavemanUMNormVCF - Unmatched VCF generation errors #41

Closed ghost closed 9 years ago

ghost commented 9 years ago

0 bam_name2id (h=0x0, ref=0x7fffffffdc40 "chr19") at sam.c:189

1 0x0000000000432a60 in hts_itr_querys (idx=0x756b60, reg=0x6d0150 "chr19:1-2000000", getid=0x433260 , hdr=,

itr_query=0x431e80 <hts_itr_query>, readrec=<optimized out>) at hts.c:1532

2 0x000000000040c914 in bam_access_get_by_position_counts ()

3 0x0000000000475d53 in gen_panel_generate_pileups_for_segment ()

4 0x000000000040b4cd in main ()

Caused by lack of reading the header via sam_hdr_read.