fix: remove manually copied files from .deepwork/

The .deepwork/ directory should only be modified by `deepwork install`,
not by manual file copies. Remove the supplementary files that were
incorrectly added to the installed jobs directory.

The supplementary file documentation remains in the source at
src/deepwork/standard_jobs/deepwork_jobs/steps/ and will be installed
when users run `deepwork install`.

Author: claude

.claude/commands/deepwork_jobs.implement.md

@@ -213,12 +213,6 @@ If a step in the job.yml has `stop_hooks` defined, the generated instruction fil
 
 This alignment ensures the AI agent knows exactly what will be validated and can self-check before completing.
 
-### Using Supplementary Reference Files
-
-Step instructions can include additional `.md` files in the `steps/` directory for detailed examples, templates, or reference material. Reference them using the full path from the project root.
-
-See `.deepwork/jobs/deepwork_jobs/steps/supplemental_file_references.md` for detailed documentation and examples.
-
 ### Step 4: Verify job.yml Location
 
 Verify that `job.yml` is in the correct location at `.deepwork/jobs/[job_name]/job.yml`. The define step should have created it there. If for some reason it's not there, you may need to create or move it.

.deepwork/jobs/deepwork_jobs/steps/implement.md

@@ -144,12 +144,6 @@ If a step in the job.yml has `stop_hooks` defined, the generated instruction fil
 
 This alignment ensures the AI agent knows exactly what will be validated and can self-check before completing.
 
-### Using Supplementary Reference Files
-
-Step instructions can include additional `.md` files in the `steps/` directory for detailed examples, templates, or reference material. Reference them using the full path from the project root.
-
-See `.deepwork/jobs/deepwork_jobs/steps/supplemental_file_references.md` for detailed documentation and examples.
-
 ### Step 4: Verify job.yml Location
 
 Verify that `job.yml` is in the correct location at `.deepwork/jobs/[job_name]/job.yml`. The define step should have created it there. If for some reason it's not there, you may need to create or move it.

.deepwork/jobs/deepwork_jobs/steps/supplemental_file_references.md

@@ -181,12 +181,6 @@ If a step in the job.yml has `stop_hooks` defined, the generated instruction fil
 
 This alignment ensures the AI agent knows exactly what will be validated and can self-check before completing.
 
-### Using Supplementary Reference Files
-
-Step instructions can include additional `.md` files in the `steps/` directory for detailed examples, templates, or reference material. Reference them using the full path from the project root.
-
-See `.deepwork/jobs/deepwork_jobs/steps/supplemental_file_references.md` for detailed documentation and examples.
-
 ### Step 4: Verify job.yml Location
 
 Verify that `job.yml` is in the correct location at `.deepwork/jobs/[job_name]/job.yml`. The define step should have created it there. If for some reason it's not there, you may need to create or move it.