Skip to content

downsamoling.sh error #5

@songxh1996

Description

@songxh1996

hello,When I run the following command, I get an error. I can't get the final bam file, am I missing some key steps?

sh downsampling.sh D2pime.bam .bam 0.1 0.2 0.3 0.4 0.8 0.9
[bam_sort_core] merging from 0 files and 8 in-memory blocks...
(standard_in) 1: syntax error
(standard_in) 1: syntax error
1263900 2527800 3791701 5055601 10111203 11375103
[E::sam_parse1] unrecognized type 2
[W::sam_read1] Parse error at line 29
[main_samview] truncated file.
[E::sam_parse1] unrecognized type 2
[W::sam_read1] Parse error at line 29
[main_samview] truncated file.
[E::sam_parse1] unrecognized type 2
[W::sam_read1] Parse error at line 29
[main_samview] truncated file.
[E::sam_parse1] unrecognized type 2
[W::sam_read1] Parse error at line 29
[main_samview] truncated file.
[E::sam_parse1] unrecognized type 2
[W::sam_read1] Parse error at line 29
[main_samview] truncated file.
[E::sam_parse1] unrecognized type 2
[W::sam_read1] Parse error at line 29
[main_samview] truncated file.

、、、
D2pime.bam
D2pime.name.sorted.0.1.coord.sorted.bam
D2pime.name.sorted.0.1.coord.sorted.bam.bai
D2pime.name.sorted.0.1.sam
D2pime.name.sorted.0.2.coord.sorted.bam
D2pime.name.sorted.0.2.coord.sorted.bam.bai
D2pime.name.sorted.0.2.sam
D2pime.name.sorted.0.3.coord.sorted.bam
D2pime.name.sorted.0.3.coord.sorted.bam.bai
D2pime.name.sorted.0.3.sam
D2pime.name.sorted.0.4.coord.sorted.bam
D2pime.name.sorted.0.4.coord.sorted.bam.bai
D2pime.name.sorted.0.4.sam
D2pime.name.sorted.0.8.coord.sorted.bam
D2pime.name.sorted.0.8.coord.sorted.bam.bai
D2pime.name.sorted.0.8.sam
D2pime.name.sorted.0.9.coord.sorted.bam
D2pime.name.sorted.0.9.coord.sorted.bam.bai
D2pime.name.sorted.0.9.sam
D2pime.name.sorted.oneliner.sam
D2pime.name.sorted.sam
D2pime.name.sorted.sam.header
downsampling.sh
、、、

Metadata

Metadata

Assignees

No one assigned

    Labels

    No labels
    No labels

    Projects

    No projects

    Milestone

    No milestone

    Relationships

    None yet

    Development

    No branches or pull requests

    Issue actions