Galaxy | (sandbox for testing) |

Primer clip sequences tool metadata

Miscellaneous

Name: Primer clip sequences

Description: Trim off 5' or 3' primers

Id: seq_primer_clip

Guid: testtoolshed.g2.bx.psu.edu/repos/peterjc/seq_primer_clip/seq_primer_clip/0.0.16

Version: 0.0.16

Version command string: python $__tool_directory__/seq_primer_clip.py --version

Display in tool panel: True

Version lineage of this tool (guids ordered most recent to oldest)

testtoolshed.g2.bx.psu.edu/repos/peterjc/seq_primer_clip/seq_primer_clip/0.0.16 (this tool)

testtoolshed.g2.bx.psu.edu/repos/peterjc/seq_primer_clip/seq_primer_clip/0.0.15

testtoolshed.g2.bx.psu.edu/repos/peterjc/seq_primer_clip/seq_primer_clip/0.0.14

testtoolshed.g2.bx.psu.edu/repos/peterjc/seq_primer_clip/seq_primer_clip/0.0.15

testtoolshed.g2.bx.psu.edu/repos/peterjc/seq_primer_clip/seq_primer_clip/0.0.14

testtoolshed.g2.bx.psu.edu/repos/peterjc/seq_primer_clip/seq_primer_clip/0.0.13

testtoolshed.g2.bx.psu.edu/repos/peterjc/seq_primer_clip/seq_primer_clip/0.0.12

testtoolshed.g2.bx.psu.edu/repos/peterjc/seq_primer_clip/seq_primer_clip/0.0.10

testtoolshed.g2.bx.psu.edu/repos/peterjc/seq_primer_clip/seq_primer_clip/0.0.9

testtoolshed.g2.bx.psu.edu/repos/peterjc/seq_primer_clip/seq_primer_clip/0.0.8

seq_primer_clip

Requirements (dependencies defined in the <requirements> tag set)

Requirements:

name

version

type

galaxy_sequence_utils

1.0.1

package

biopython

1.67

package

Functional tests

name

inputs

outputs

required files

Test-1

keep_negatives: False
primer_fasta: dop_primers.fasta
input_file: MID4_GLZRM4E04_rnd30.fasta
mm: 2
min_len: 35
primer_type: Forward

attributes: name

MID4_GLZRM4E04_rnd30.fasta
dop_primers.fasta
name

Test-2

keep_negatives: False
primer_fasta: dop_primers.fasta
input_file: MID4_GLZRM4E04_rnd30.fastqsanger
mm: 2
min_len: 35
primer_type: Forward

attributes: name

MID4_GLZRM4E04_rnd30.fastqsanger
dop_primers.fasta
name

Test-3

keep_negatives: False
primer_fasta: dop_primers.fasta
input_file: MID4_GLZRM4E04_rnd30.sff
mm: 2
min_len: 35
primer_type: Forward

attributes: name

MID4_GLZRM4E04_rnd30.sff
dop_primers.fasta
name

Test-4

keep_negatives: True
primer_fasta: dop_primers.fasta
input_file: MID4_GLZRM4E04_rnd30_fclip.fasta
mm: 2
min_len: 35
primer_type: Reverse

attributes: name

MID4_GLZRM4E04_rnd30_fclip.fasta
dop_primers.fasta
name

Test-5

keep_negatives: True
primer_fasta: dop_primers.fasta
input_file: MID4_GLZRM4E04_rnd30_fclip.fastqsanger
mm: 2
min_len: 35
primer_type: Reverse

attributes: name

MID4_GLZRM4E04_rnd30_fclip.fastqsanger
dop_primers.fasta
name

Test-6

keep_negatives: True
primer_fasta: dop_primers.fasta
input_file: MID4_GLZRM4E04_rnd30_fclip.sff
mm: 2
min_len: 35
primer_type: Reverse

attributes: name

MID4_GLZRM4E04_rnd30_fclip.sff
dop_primers.fasta
name