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{%extends "base.html"%}
{%from "cli-output.html" import cli_output%}
{%block title%}R/qtl2 bundle: QC Job Error{%endblock%}
{%macro errors_table(tableid, errors)%}
<table id="{{tableid}}" class="table error-table">
<caption>{{caption}}</caption>
<thead>
<tr>
<th>Line</th>
<th>Column</th>
<th>Value</th>
<th>Message</th>
</tr>
</thead>
<tbody>
{%for error in errors%}
<tr>
<td>{{error.line}}</td>
<td>{{error.column}}</td>
<td>{{error.value}}</td>
<td>{{error.message}}</td>
</tr>
{%else%}
<tr>
<td colspan="4">No errors to display here.</td>
</tr>
{%endfor%}
</tbody>
</table>
{%endmacro%}
{%block contents%}
<h1 class="heading">R/qtl2 bundle: QC job Error</h1>
<div class="explainer">
<p>The R/qtl2 bundle has failed some <emph>Quality Control</emph> checks.</p>
<p>We list below some of the errors that need to be fixed before the data can
be uploaded onto GeneNetwork.</p>
</div>
{%if errorsgeneric | length > 0%}
<h2 class="heading">Generic Errors ({{errorsgeneric | length}})</h3>
<div class="explainer">
We found the following generic errors in your R/qtl2 bundle:
</div>
<h3>Missing Files</h3>
<div class="explainer">
<p>These files are listed in the bundle's control file, but do not actually
exist in the bundle</p>
</div>
<table id="tbl-errors-missing-files" class="table error-table">
<thead>
<tr>
<th>Control File Key</th>
<th>Bundle File Name</th>
<th>Message</th>
</tr>
</thead>
<tbody>
{%for error in (errorsgeneric | selectattr("type", "equalto", "MissingFile"))%}
<tr>
<td>{{error.controlfilekey}}</td>
<td>{{error.filename}}</td>
<td>{{error.message}}</td>
</tr>
{%endfor%}
</tbody>
</table>
<h3>Other Generic Errors</h3>
{{errors_table("tbl-errors-generic", errorsgeneric| selectattr("type", "ne", "MissingFile"))}}
{%endif%}
{%if errorsgeno | length > 0%}
<h2 class="heading">Geno Errors ({{errorsgeno | length}})</h3>
<div class="explainer">
We found the following errors in the 'geno' file in your R/qtl2 bundle:
</div>
{{errors_table("tbl-errors-geno", errorsgeno[0:50])}}
{%endif%}
{%if errorspheno | length > 0%}
<h2 class="heading">Pheno Errors ({{errorspheno | length}})</h3>
<div class="explainer">
We found the following errors in the 'pheno' file in your R/qtl2 bundle:
</div>
{{errors_table("tbl-errors-pheno", errorspheno[0:50])}}
{%endif%}
{%if errorsphenose | length > 0%}
<h2 class="heading">Phenose Errors ({{errorsphenose | length}})</h3>
<div class="explainer">
We found the following errors in the 'phenose' file in your R/qtl2 bundle:
</div>
{{errors_table("tbl-errors-phenose", errorsphenose[0:50])}}
{%endif%}
{%if errorsphenocovar | length > 0%}
<h2 class="heading">Phenocovar Errors ({{errorsphenocovar | length}})</h3>
<div class="explainer">
We found the following errors in the 'phenocovar' file in your R/qtl2 bundle:
</div>
{{errorsphenocovar}}
{%endif%}
<h4>stdout</h4>
{{cli_output(job, "stdout")}}
<h4>stderr</h4>
{{cli_output(job, "stderr")}}
<h4>Log</h4>
<div class="cli-output">
<pre>{{"\n".join(messages)}}</pre>
</div>
{%endblock%}
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