diff options
| -rw-r--r-- | bh20simplewebuploader/static/main.js | 5 | ||||
| -rw-r--r-- | bh20simplewebuploader/templates/form.html | 8 | ||||
| -rw-r--r-- | doc/blog/using-covid-19-pubseq-part1.org | 8 |
3 files changed, 12 insertions, 9 deletions
diff --git a/bh20simplewebuploader/static/main.js b/bh20simplewebuploader/static/main.js index bf95832..024a101 100644 --- a/bh20simplewebuploader/static/main.js +++ b/bh20simplewebuploader/static/main.js @@ -50,10 +50,6 @@ let fetchAllaccessions = () => { * may not expect. */ -let uploadForm = document.getElementById('metadata_upload_form') -let uploadFormSpot = document.getElementById('metadata_upload_form_spot') -let fillForm = document.getElementById('metadata_fill_form') -let fillFormSpot = document.getElementById('metadata_fill_form_spot') function setUploadMode() { // Make the upload form the one in use. @@ -87,7 +83,6 @@ function setMode() { // have set the radio button to whatever the state was on last page load, // instead of the default state, without raising an event, and we have to // handle that. -setMode() /** * Add another form field to the group this button is part of. diff --git a/bh20simplewebuploader/templates/form.html b/bh20simplewebuploader/templates/form.html index 2cbaf62..1227ca2 100644 --- a/bh20simplewebuploader/templates/form.html +++ b/bh20simplewebuploader/templates/form.html @@ -114,7 +114,7 @@ {% for record in fields %} {% if 'heading' in record %} - {% if loop.index > 1 and 2 < 3 %} + {% if loop.index > 1 and 2 < 3 %} <!-- for emacs matching elements --> </div> {% endif %} <div class="record"> <!-- from block, e.g. host fields --> @@ -211,6 +211,12 @@ <script type="text/javascript"> let scriptRoot = {{ request.script_root|tojson|safe }}; + let uploadForm = document.getElementById('metadata_upload_form') + let uploadFormSpot = document.getElementById('metadata_upload_form_spot') + let fillForm = document.getElementById('metadata_fill_form') + let fillFormSpot = document.getElementById('metadata_fill_form_spot') + + setMode() document.addEventListener("DOMContentLoaded", function(){ var count = fetch("/api/getCount") diff --git a/doc/blog/using-covid-19-pubseq-part1.org b/doc/blog/using-covid-19-pubseq-part1.org index 4b7ddc6..bca885d 100644 --- a/doc/blog/using-covid-19-pubseq-part1.org +++ b/doc/blog/using-covid-19-pubseq-part1.org @@ -138,10 +138,12 @@ select distinct ?dataset ?submitter } #+end_src -which reads a bit better. We can also see the datasets. One of them submitted -by University of Washington is -is http://arvados.org/keep:00fede2c6f52b053a14edca01cfa02b7+126/sequence.fasta +which reads a bit better. We can also see the [[http://sparql.genenetwork.org/sparql/?default-graph-uri=&query=PREFIX+pubseq%3A+%3Chttp%3A%2F%2Fbiohackathon.org%2Fbh20-seq-schema%23MainSchema%2F%3E%0D%0Aselect+distinct+%3Fdataset+%3Fsubmitter%0D%0A%7B%0D%0A+++%3Fdataset+pubseq%3Asubmitter+%3Fid+.%0D%0A+++%3Fid+%3Fp+%3Fsubmitter%0D%0A%7D%0D%0A&format=text%2Fhtml&timeout=0&debug=on&run=+Run+Query+][submitted sequences]]. One +of them submitted by University of Washington is +http://collections.lugli.arvadosapi.com/c=030bcb8fda7f19743157359f5855f7a6+126/sequence.fasta (note the ID may have changed so pick one with above query). +To see the submitted metadata replace sequence.fasta with metadata.yaml +http://collections.lugli.arvadosapi.com/c=030bcb8fda7f19743157359f5855f7a6+126/metadata.yaml Now we got this far, lets [[http://sparql.genenetwork.org/sparql/?default-graph-uri=http%3A%2F%2Fcovid-19.genenetwork.org%2Fgraph%2Fmetadata.ttl&query=PREFIX+pubseq%3A+%3Chttp%3A%2F%2Fbiohackathon.org%2Fbh20-seq-schema%23MainSchema%2F%3E%0D%0Aselect+%28COUNT%28distinct+%3Fdataset%29+as+%3Fnum%29%0D%0A%7B%0D%0A+++%3Fdataset+pubseq%3Asubmitter+%3Fid+.%0D%0A+++%3Fid+%3Fp+%3Fsubmitter%0D%0A%7D+&format=text%2Fhtml&timeout=0&debug=on&run=+Run+Query+][count the datasets]] submitted with |