错误信息表明 nbt.align_filter.bam 文件没有被 BGZF(Block-Gzip Format)压缩,而这是 BAM 文件所必需的。BAM 文件是 SAM 文件的二进制压缩版本,必须使用 BGZF 压缩算法进行压缩。 2. 检查文件是否确实未进行 bgzf 压缩 您可以通过以下几种方法来检查文件是否已被 BGZF 压缩: 文件大小:未压缩的 SAM 文件通常比...
Tabix only indexes, but does not bgzf-compress files. You'll need either usebcftools vieworbgzipto compress the files first: bgzip file.vcf # or: bcftools view file.vcf -Oz -o file.vcf.gz tabix file.vcf.gz # or: bcftools index file.vcf.gz Another useful command ishtsfile file.vcf....
I finally have a prototype (rapidgzip) that can parallelize the decoding of bgzf files, pigz files, and arbitrary gzip files, for which an index created byindexed_gzipmay or may not exist. Using a Ryzen 3900X,rapidgzipis not only almost 10x faster than gzip decoding in these test conditi...
gcc -g -Wall -O2 -I. -c -o knetfile.o knetfile.c gcc -g -Wall -O2 -I. -c -o kstring.o kstring.c gcc -g -Wall -O2 -I. -c -o bcf_sr_sort.o bcf_sr_sort.c gcc -g -Wall -O2 -I. -c -o bgzf.o bgzf.c gcc -g -Wall -O2 -I. -c -o errmod.o errmod.c ...
/mnt/cifs01/simone/software/miniconda2/envs/svviz2_env/lib/python3.7/site-packages/pysam/include/htslib/htslib/bgzf.h:35:10: fatal error: zlib.h: No such file or directory #include <zlib.h> ^~~~ compilation terminated. error: command '/mnt/cifs01/simone/software/miniconda2/envs/svviz...