Rerun ews (5 of N) - Githubissues

Purpose/implementation Section

What scientific question is your analysis addressing?

rerun EWS subtyping

What was your approach?

just like with CRANIO, HTML file was created but shows no diff:

output file: 01-run-subtyping-ewings.knit.md

/usr/local/bin/pandoc +RTS -K512m -RTS 01-run-subtyping-ewings.utf8.md --to html4 --from markdown+autolink_bare_uris+ascii_identifiers+tex_math_single_backslash+smart --output 01-run-subtyping-ewings.html --email-obfuscation none --self-contained --standalone --section-divs --template /usr/local/lib/R/site-library/rmarkdown/rmd/h/default.html --no-highlight --variable highlightjs=1 --variable 'theme:bootstrap' --include-in-header /tmp/Rtmpshqyev/rmarkdown-str25216b3471a.html --mathjax --variable 'mathjax-url:https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML' --variable code_folding=show --variable source_embed=01-run-subtyping-ewings.Rmd --include-after-body /tmp/Rtmpshqyev/file252752c0ebd.html --variable code_menu=1 --variable kable-scroll=1

Output created: 01-run-subtyping-ewings.nb.html

Interestingly, the bash file code for both this, and CRANIO are identical, but adding , clean = T in Rmarkdown render command did not change git being able to see a new HTML file. I added it here just to show it was done. No other changes

What GitHub issue does your pull request address?

Directions for reviewers. Tell potential reviewers what kind of feedback you are soliciting.

Which areas should receive a particularly close look?

Is there anything that you want to discuss further?

Is the analysis in a mature enough form that the resulting figure(s) and/or table(s) are ready for review?

Results

What types of results are included (e.g., table, figure)?

What is your summary of the results?

Reproducibility Checklist

[ ] The dependencies required to run the code in this pull request have been added to the project Dockerfile.
[ ] This analysis has been added to continuous integration.

Documentation Checklist

[ ] This analysis module has a README and it is up to date.
[ ] This analysis is recorded in the table in analyses/README.md and the entry is up to date.
[ ] The analytical code is documented and contains comments.

AlexsLemonade / OpenPBTA-analysis

Rerun ews (5 of N) #1380