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Diffstat (limited to 'doc/blog/using-covid-19-pubseq-part3.org')
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diff --git a/doc/blog/using-covid-19-pubseq-part3.org b/doc/blog/using-covid-19-pubseq-part3.org index ade902d..4dd3078 100644 --- a/doc/blog/using-covid-19-pubseq-part3.org +++ b/doc/blog/using-covid-19-pubseq-part3.org @@ -18,6 +18,7 @@ - [[#obligatory-fields][Obligatory fields]] - [[#optional-fields][Optional fields]] - [[#step-3-submit-to-covid-19-pubseq][Step 3: Submit to COVID-19 PubSeq]] + - [[#step-4-check-output][Step 4: Check output]] - [[#trouble-shooting][Trouble shooting]] * Introduction @@ -135,6 +136,13 @@ Once you have the sequence and the metadata together, hit the 'Add to Pangenome' button. The data will be checked, submitted and the workflows should kick in! +* Step 4: Check output + +The current pipeline takes 5.5 hours to complete! Once it completes +the updated data can be checked on the [[./download][DOWNLOAD]] page. After completion +of above output this [[http://sparql.genenetwork.org/sparql/?default-graph-uri=&query=PREFIX+pubseq%3A+%3Chttp%3A%2F%2Fbiohackathon.org%2Fbh20-seq-schema%23MainSchema%2F%3E%0D%0APREFIX+sio%3A+%3Chttp%3A%2F%2Fsemanticscience.org%2Fresource%2F%3E%0D%0Aselect+distinct+%3Fsample+%3Fp+%3Fo%0D%0A%7B%0D%0A+++%3Fsample+sio%3ASIO_000115+%22MT536190.1%22+.%0D%0A+++%3Fsample+%3Fp+%3Fo+.%0D%0A%7D&format=text%2Fhtml&timeout=0&debug=on&run=+Run+Query+][SPARQL query]] shows some of the metadata we put +in. + ** Trouble shooting We got an error saying: {"stem": "http://www.wikidata.org/entity/",... |