Closed cbun closed 9 years ago
@cbun Chris, how do we access the fastqc text files?
@levinas this route should show any available files:
curl localhost:8000/user/cbun/job/1007/shock_node
{
"1.fastqc_report_1.txt": "6501bb03-104f-4cc1-915f-db2b60eec28b",
"1.fastqc_report_2.txt": "ed59a395-7b1e-410f-b25e-4ab39112a5d7",
"1007_report.txt": "58c69501-7de1-417b-9317-9b4c2390bea0"
}
Now, getting FastQC files is dependent on the recipe as well.
Wasp will upload any default output on the outermost expression. An example of a default: kiki.py specifies OUTPUT = contigs
and returns a dictionary {"contigs": ["contigs.fa"]}
(fastqc READS)
;; => fastqc.txt
And also any children of a (begin ...)
expresions:
(begin
(fastqc READS)
(kiki READS))
;; => fastqc.txt, kiki.fa
And furthermore, can be explicitly called for upload:
(sspace (upload (kiki READS)))
;; => sspace.fa, kiki.fa
Keeps track of any output provided by a plugin. This can be used with tools such as FastQC to retrieve analysis data: