bam文件处理 转fq

原始 BAM 文件和 sort 之后 BAM 文件的行数，是一样的。
SEQanswers：BAM is compressed. Sorting helps to give a better compression ratio because similar sequences are grouped together.

bam转回fq时报错: github查找同问题结果1 2 3

 *****WARNING: Query 17 is marked as paired, but its mate does not occur next to it in your BAM file.  Skipping.
*****WARNING: Query 13 is marked as paired, but its mate does not occur next to it in your BAM file.  Skipping.
*****WARNING: Query 223 is marked as paired, but its mate does not occur next to it in your BAM file.  Skipping.

sort -n 后 warning行数变少1,333,109,095变为11,212,985
？？？：

nohup samtools sort -n S1_T_SRR1273943.bam -o ./S1_T_SRR1273943.sortedByName.bam >log.S1.bam.sortbyname 2>&