Samtools sort results are different

Question

[Daier]

samtools view -bhq 20 -@ 16 ./${sample}.sam | \
  samtools sort -m 5G -@ 16 -o ./${sample}.bam

The following results were obtained

starting new job with ongoing=0
[bam_sort_core] merging from 0 files and 16 in-memory blocks...

However, when the same method is used for different samples, only the following results appear

starting new job with ongoing=0

I don't know why, how can I find the problem?

[Ram]

Hang on, are the results different or is the log different?

[Daier]

It's all different. Without [bam_sort_core] that line of information,we would have got BAM files of more than 100kb, but we got BAM files of 20KB and 30Kb.

[Daier]

Another strange point is that for the same sample, when I use the reference genome of the whole genome, there will be two lines of information

starting new job with ongoing=0
[bam_sort_core] merging from 0 files and 16 in-memory blocks...

In the mitochondrial reference genome, there is only one line of information

starting new job with ongoing=0

and there is no other information.

[Ram]

Try echo-ing $sample before each command. I have a feeling $sample.sam is doing something unexpected.