restructure sections

[m7pr]

Part of:

• [Bug]: Downloading report without code keeps Module's Code section teal.reporter#400

Restructured sections-headers. Pleaase check out with

• fix code-chunk class teal.reporter#425
• include teal-slices yaml in the Data filtering section teal#1634

[github-actions]

Unit Tests Summary

 1 files   1 suites   0s ⏱️
 4 tests  4 ✅ 0 💤 0 ❌
13 runs  13 ✅ 0 💤 0 ❌

Results for commit a93b67b.

♻️ This comment has been updated with latest results.

[github-actions]

Code Coverage Summary

Filename                    Stmts    Miss  Cover    Missing
------------------------  -------  ------  -------  --------------
R/tm_g_ae_oview.R             225     225  0.00%    84-337
R/tm_g_ae_sub.R               288     288  0.00%    60-379
R/tm_g_butterfly.R            371     371  0.00%    125-534
R/tm_g_decorate.R              42      42  0.00%    17-91
R/tm_g_events_term_id.R       271     271  0.00%    63-364
R/tm_g_heat_bygrade.R         293     293  0.00%    136-459
R/tm_g_patient_profile.R      691     691  0.00%    159-913
R/tm_g_spiderplot.R           322     322  0.00%    100-464
R/tm_g_swimlane.R             345     345  0.00%    127-525
R/tm_g_waterfall.R            429     429  0.00%    109-590
R/utils.R                      85      80  5.88%    31-73, 107-240
R/zzz.R                         3       3  0.00%    4-7
TOTAL                        3365    3360  0.15%

Diff against main

Filename                    Stmts    Miss  Cover
------------------------  -------  ------  --------
R/tm_g_ae_oview.R              -1      -1  +100.00%
R/tm_g_ae_sub.R                -1      -1  +100.00%
R/tm_g_butterfly.R             -1      -1  +100.00%
R/tm_g_events_term_id.R        -1      -1  +100.00%
R/tm_g_heat_bygrade.R          -1      -1  +100.00%
R/tm_g_patient_profile.R       -1      -1  +100.00%
R/tm_g_spiderplot.R            -1      -1  +100.00%
R/tm_g_swimlane.R              -1      -1  +100.00%
R/tm_g_waterfall.R             -1      -1  +100.00%
TOTAL                          -9      -9  +0.00%

Results for commit: a93b67b

Minimum allowed coverage is 80%

♻️ This comment has been updated with latest results

[llrs-roche]

Table of contents look ok:

I couldn't find any other section titles to modify.

---

However, I noticed that it doesn't have any code to load the data for the app. The report starts with the module without any code showing how the data is loaded.

[m7pr]

@llrs-roche what do you mean in here

However, I noticed that it doesn't have any code to load the data for the app. The report starts with the module without any code showing how the data is loaded.

Each module has Data preparation sesction. It's even visible on your print screen

[llrs-roche]

If you run the first 4 lines of code (without the pipe) on a fresh R session you'll see that it generates an error. It lacks loading a library with the rADRS being loaded. rADRS is present on osprey but the library is not loaded or available, so the code is not reproducible.

[m7pr]

@llrs-roche it's not the reason of the package, but the reason of how you prepared teal_data.
If you used the code from this Discussion
#318

then you can see it's the reason of data preparations : )

But honestly we assume you will run library(teal.osprey), this actually attaches teal since teal is in Depends, and when teal is attached then teal.data is also attached, as teal.data is in the Depends of teal.

So the only missing part is running library(teal.osprey) but that's a silent assumption that you execute it : P
It also happens in the examples in this package.