fix CI errors (#35)

* fix spelling errors

* renumber episodes to close gap

* only skip book texts

Author: Trevor Keller

.github/workflows/test_and_build.yml

@@ -20,7 +20,7 @@ jobs:
         pip3 install codespell
     - name: Check spelling
       run: |
-        codespell --skip="assets,*.svg,bin" --quiet-level=2  -L "rouge,dropse,namd,hist"
+        codespell --skip="assets,.bundle,_site,*.svg,*.txt,.vendor" --quiet-level=2  -L "dropse,hart,hist,namd,rouge"
 
   check_lesson_and_build_default:
     runs-on: ubuntu-latest

Makefile

@@ -97,7 +97,7 @@ workshop-check :
 ## III. Commands specific to lesson websites
 ## =================================================
 
-.PHONY : lesson-check lesson-md lesson-files lesson-fixme
+.PHONY : lesson-check lesson-md lesson-files lesson-fixme spellcheck
 
 # RMarkdown files
 RMD_SRC = $(wildcard _episodes_rmd/??-*.Rmd)
@@ -137,6 +137,9 @@ lesson-check : lesson-fixme
 lesson-check-all :
 	@${PYTHON} bin/lesson_check.py -s . -p ${PARSER} -r _includes/links.md -l -w --permissive
 
+spellcheck:
+	codespell --skip="assets,.bundle,_site,*.svg,*.txt,.vendor" --quiet-level=2  -L "dropse,hart,hist,namd,rouge"
+
 ## * unittest         : run unit tests on checking tools
 unittest :
 	@${PYTHON} bin/test_lesson_check.py

_config.yml

@@ -25,14 +25,14 @@ episode_order:
   - 04-dicts
   - 05-functions
   - 06-parallel
-  - 11-snakemake-intro
-  - 12-snakefiles
-  - 13-wildcards
-  - 14-patterns
-  - 15-snakemake-python
-  - 16-resources
-  - 17-cluster
-  - 18-final-notes
+  - 07-snakemake-intro
+  - 08-snakefiles
+  - 09-wildcards
+  - 10-patterns
+  - 11-snakemake-python
+  - 12-resources
+  - 13-cluster
+  - 14-final-notes
 
 #------------------------------------------------------------
 # Generic settings (should not need to change).