Build site.

docs/index.html

@@ -306,7 +306,7 @@ <h1 class="title toc-ignore">Home</h1>
 <div class="tab-content">
 <div id="summary" class="tab-pane fade in active">
 <p>
-<strong>Last updated:</strong> 2023-11-07
+<strong>Last updated:</strong> 2023-11-28
 </p>
 <p>
 <strong>Checks:</strong> <span class="glyphicon glyphicon-ok text-success" aria-hidden="true"></span> 2 <span class="glyphicon glyphicon-exclamation-sign text-danger" aria-hidden="true"></span> 0
@@ -337,16 +337,16 @@ <h1 class="title toc-ignore">Home</h1>
 <div class="panel panel-default">
 <div class="panel-heading">
 <p class="panel-title">
-<a data-toggle="collapse" data-parent="#workflowr-checks" href="#strongRepositoryversionstrongahrefhttpsgithubcomnklimkodgrpstarvetree24cb2ef1cd2596382fbf83fe960bbaa8f1b06bb4targetblank24cb2efa"> <span class="glyphicon glyphicon-ok text-success" aria-hidden="true"></span> <strong>Repository version:</strong> <a href="https://github.com/nklimko/dgrp-starve/tree/24cb2ef1cd2596382fbf83fe960bbaa8f1b06bb4" target="_blank">24cb2ef</a> </a>
+<a data-toggle="collapse" data-parent="#workflowr-checks" href="#strongRepositoryversionstrongahrefhttpsgithubcomnklimkodgrpstarvetree6849c767000c93c31d51a9e8e9e04f1171ae6ed8targetblank6849c76a"> <span class="glyphicon glyphicon-ok text-success" aria-hidden="true"></span> <strong>Repository version:</strong> <a href="https://github.com/nklimko/dgrp-starve/tree/6849c767000c93c31d51a9e8e9e04f1171ae6ed8" target="_blank">6849c76</a> </a>
 </p>
 </div>
-<div id="strongRepositoryversionstrongahrefhttpsgithubcomnklimkodgrpstarvetree24cb2ef1cd2596382fbf83fe960bbaa8f1b06bb4targetblank24cb2efa" class="panel-collapse collapse">
+<div id="strongRepositoryversionstrongahrefhttpsgithubcomnklimkodgrpstarvetree6849c767000c93c31d51a9e8e9e04f1171ae6ed8targetblank6849c76a" class="panel-collapse collapse">
 <div class="panel-body">
 <p>
 Great! You are using Git for version control. Tracking code development and connecting the code version to the results is critical for reproducibility.
 </p>
 <p>
-The results in this page were generated with repository version <a href="https://github.com/nklimko/dgrp-starve/tree/24cb2ef1cd2596382fbf83fe960bbaa8f1b06bb4" target="_blank">24cb2ef</a>. See the <em>Past versions</em> tab to see a history of the changes made to the R Markdown and HTML files.
+The results in this page were generated with repository version <a href="https://github.com/nklimko/dgrp-starve/tree/6849c767000c93c31d51a9e8e9e04f1171ae6ed8" target="_blank">6849c76</a>. See the <em>Past versions</em> tab to see a history of the changes made to the R Markdown and HTML files.
 </p>
 <p>
 Note that you need to be careful to ensure that all relevant files for the analysis have been committed to Git prior to generating the results (you can use <code>wflow_publish</code> or <code>wflow_git_commit</code>). workflowr only checks the R Markdown file, but you know if there are other scripts or data files that it depends on. Below is the status of the Git repository when the results were generated:
@@ -370,13 +370,32 @@ <h1 class="title toc-ignore">Home</h1>
     Ignored:    snake/binner2.R
     Ignored:    snake/code/misc/
     Ignored:    snake/data/
+    Ignored:    snake/datafile.yaml
     Ignored:    snake/dgrp.yaml
+    Ignored:    snake/f_file.yaml
+    Ignored:    snake/goNames.sh
+    Ignored:    snake/goPost/
+    Ignored:    snake/gofig.yaml
+    Ignored:    snake/gospace.R
     Ignored:    snake/h2_synth.R
     Ignored:    snake/labMake.R
     Ignored:    snake/logs/
+    Ignored:    snake/meta.sh
+    Ignored:    snake/metaList
+    Ignored:    snake/newlines
+    Ignored:    snake/note1
+    Ignored:    snake/pipelines/
+    Ignored:    snake/rawHits
+    Ignored:    snake/s1.sh
+    Ignored:    snake/s2.sh
+    Ignored:    snake/s3.sh
     Ignored:    snake/slurm/
-    Ignored:    snake/snakemake_submitter.sbatch
-    Ignored:    snake/temp/
+    Ignored:    snake/smake.sbatch
+    Ignored:    snake/snubnose.sbatch
+    Ignored:    snake/srfile.yaml
+    Ignored:    snake/temp9/
+    Ignored:    snake/temporaire-rewrite.R
+    Ignored:    snake/trimHits
     Ignored:    snake/vavrfile.yaml
     Ignored:    snake/vavrmake
     Ignored:    snake/zz_lost/
@@ -385,19 +404,22 @@ <h1 class="title toc-ignore">Home</h1>
 Untracked files:
     Untracked:  analysis/old_index.Rmd.Rmd
     Untracked:  forester.R
+    Untracked:  malegofind.R
     Untracked:  snake/code/binner.R
     Untracked:  snake/code/combine_GO.R
     Untracked:  snake/code/dataFinGO.R
+    Untracked:  snake/code/datafile.yaml
     Untracked:  snake/code/filterNcombine_GO.R
     Untracked:  snake/code/filter_GO.R
     Untracked:  snake/code/go/
     Untracked:  snake/code/method/bayesHome.R
-    Untracked:  snake/code/method/gofig.yaml
     Untracked:  snake/code/method/multiplotGO.Rmd
+    Untracked:  snake/code/srfile.yaml
 
 Unstaged changes:
     Modified:   analysis/Method/BayesC.Rmd
     Modified:   analysis/bigGO.Rmd
+    Modified:   analysis/goReport.Rmd
     Modified:   snake/code/method/bayesGO.R
     Modified:   snake/code/method/goFish.R
     Modified:   snake/code/method/varbvs.R
@@ -444,6 +466,40 @@ <h1 class="title toc-ignore">Home</h1>
 Rmd
 </td>
 <td>
+<a href="https://github.com/nklimko/dgrp-starve/blob/6849c767000c93c31d51a9e8e9e04f1171ae6ed8/analysis/index.Rmd" target="_blank">6849c76</a>
+</td>
+<td>
+nklimko
+</td>
+<td>
+2023-11-28
+</td>
+<td>
+wflow_publish(“analysis/index.Rmd”)
+</td>
+</tr>
+<tr>
+<td>
+html
+</td>
+<td>
+<a href="https://rawcdn.githack.com/nklimko/dgrp-starve/a79387712019e0af56f01613bb9e4a51196f48e0/docs/index.html" target="_blank">a793877</a>
+</td>
+<td>
+nklimko
+</td>
+<td>
+2023-11-07
+</td>
+<td>
+Build site.
+</td>
+</tr>
+<tr>
+<td>
+Rmd
+</td>
+<td>
 <a href="https://github.com/nklimko/dgrp-starve/blob/24cb2ef1cd2596382fbf83fe960bbaa8f1b06bb4/analysis/index.Rmd" target="_blank">24cb2ef</a>
 </td>
 <td>
@@ -1267,6 +1323,7 @@ <h1 class="title toc-ignore">Home</h1>
 <li><a href="allHist.html">Summary of Univariate and Multivariate models</a></li>
 <li><a href="goPlots.html">BayesGO: Layering GO annotations with Bayesian methods</a></li>
 <li><a href="bigGO.html">BayesGO preliminary results</a></li>
+<li><a href="goReport.html">GObayesC Report</a></li>
 </ul>
 <p>Methods</p>
 <ul>