Mercurial > repos > mingchen0919 > rmarkdown_collection_builder
diff collection_list_render.R @ 3:cb6efa0f0cb6 draft
planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_collection_builder commit 93b036c66fd754a7af459fa80d3f7f143a68477b-dirty
| author | mingchen0919 |
|---|---|
| date | Mon, 25 Sep 2017 16:33:54 -0400 |
| parents | 56b68a320c0e |
| children | 63e9500cdeec |
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--- a/collection_list_render.R Mon Sep 25 16:25:35 2017 -0400 +++ b/collection_list_render.R Mon Sep 25 16:33:54 2017 -0400 @@ -34,7 +34,7 @@ spec_list$ECHO = c('echo', 'e', '1', 'character') spec_list$FORMAT = c('format', 'f', '1', 'character') ##--------2. output report and outputs -------------- -spec_list$REPORT = c('report', 'r', '1', 'character') +spec_list$OUTPUT_HTML = c('list_collection_html', 'r', '1', 'character') spec_list$OUTPUT_DIR = c('list_collection_dir', 'd', '1', 'character') ##--------3. Rmd templates in the tool directory ---------- spec_list$LIST_COLLECTION_RMD = c('list_collection_rmd', 't', '1', 'character') @@ -78,6 +78,7 @@ }) #------ 3. render all Rmd files -------- -render('list_collection.Rmd', output_file = opt$report) +render('list_collection.Rmd', output_file = opt$list_collection_html) +cat('test') #-------4. manipulate outputs -----------------------------