| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.6.3 |
| toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.4.3.1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.4.3.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.4.3 |
| toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.4.2 |
| toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.4.1 |
| toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.4.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.3.7.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8.1 |
| toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.8 |
| toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.2.4.1 |
| trim_galore |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| trim-galore | 0.4.3 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
params|report: True params|settingsType: custom singlePaired|sPaired: single singlePaired|input_singles: sanger_full_range_original_sanger.fastqsanger |
trimmed_reads_single: sanger_full_range_results1.fastqsanger report_file: sanger_full_range_report_results1.txt |
sanger_full_range_original_sanger.fastqsanger sanger_full_range_results1.fastqsanger sanger_full_range_report_results1.txt |
| Test-2 |
params|report: True params|settingsType: custom singlePaired|sPaired: single singlePaired|input_singles: sanger_full_range_original_sanger.fastq.gz |
trimmed_reads_single: sanger_full_range_results1.fastq.gz report_file: sanger_full_range_report_results1gz.txt |
sanger_full_range_original_sanger.fastq.gz sanger_full_range_results1.fastq.gz sanger_full_range_report_results1gz.txt |
| Test-3 |
singlePaired|trimming|trimming_select: --illumina singlePaired|sPaired: single singlePaired|input_singles: sanger_full_range_original_sanger.fastqsanger |
trimmed_reads_single: sanger_full_range_results2.fastqsanger |
sanger_full_range_original_sanger.fastqsanger sanger_full_range_results2.fastqsanger |
| Test-4 |
singlePaired|trimming|trimming_select: --illumina singlePaired|sPaired: single singlePaired|input_singles: sanger_full_range_original_sanger.fastq.gz |
trimmed_reads_single: sanger_full_range_results2.fastq.gz |
sanger_full_range_original_sanger.fastq.gz sanger_full_range_results2.fastq.gz |
| Test-5 |
singlePaired|sPaired: single singlePaired|input_singles: sanger_full_range_original_sanger.fastqsanger |
trimmed_reads_single: sanger_full_range_results3.fastqsanger |
sanger_full_range_original_sanger.fastqsanger sanger_full_range_results3.fastqsanger |
| Test-6 |
singlePaired|sPaired: single singlePaired|input_singles: sanger_full_range_original_sanger.fastq.gz |
trimmed_reads_single: sanger_full_range_results3.fastq.gz |
sanger_full_range_original_sanger.fastq.gz sanger_full_range_results3.fastq.gz |
| Test-7 |
params|report: True singlePaired|input_mate2: bwa-mem-fastq2.fq singlePaired|input_mate1: bwa-mem-fastq1.fq params|settingsType: custom singlePaired|sPaired: paired |
trimmed_reads_pair1: paired_example_pair1_results2.fastqsanger trimmed_reads_pair2: paired_example_pair2_results2.fastqsanger report_file: paired_example_results2.txt |
bwa-mem-fastq1.fq bwa-mem-fastq2.fq paired_example_pair1_results2.fastqsanger paired_example_pair2_results2.fastqsanger paired_example_results2.txt |
| Test-8 |
params|report: True singlePaired|input_mate2: bwa-mem-fastq2.fq.gz singlePaired|input_mate1: bwa-mem-fastq1.fq.gz params|settingsType: custom singlePaired|sPaired: paired |
trimmed_reads_pair1: paired_example_pair1_results2.fastq.gz trimmed_reads_pair2: paired_example_pair2_results2.fastq.gz report_file: paired_example_results2gz.txt |
bwa-mem-fastq1.fq.gz bwa-mem-fastq2.fq.gz paired_example_pair1_results2.fastq.gz paired_example_pair2_results2.fastq.gz paired_example_results2gz.txt |
| Test-9 |
params|report: True params|settingsType: custom params|retain_unpaired|retain_unpaired_select: retain_unpaired_output singlePaired|input_mate_pairs: paired collection singlePaired|sPaired: paired_collection |
report_file: paired_collection_example_results3.txt |
bwa-mem-fastq1.fq bwa-mem-fastq2.fq paired_collection_example_results3.txt |
| Test-10 |
params|report: True params|settingsType: custom params|retain_unpaired|retain_unpaired_select: retain_unpaired_output singlePaired|input_mate_pairs: paired collection singlePaired|sPaired: paired_collection |
report_file: paired_collection_example_results3gz.txt |
bwa-mem-fastq1.fq.gz bwa-mem-fastq2.fq.gz paired_collection_example_results3gz.txt |