Skip to content

Commit 99daa55

Browse files
committed
[GL_RefAnnotTable] Fix typos
1 parent 232e421 commit 99daa55

File tree

1 file changed

+4
-7
lines changed
  • GeneLab_Reference_Annotations/Workflow_Documentation/GL_RefAnnotTable-A

1 file changed

+4
-7
lines changed

GeneLab_Reference_Annotations/Workflow_Documentation/GL_RefAnnotTable-A/README.md

Lines changed: 4 additions & 7 deletions
Original file line numberDiff line numberDiff line change
@@ -82,14 +82,14 @@ cd GL_RefAnnotTable-A_1.1.0
8282

8383
#### 3. Fetch Apptainer Image
8484

85-
To fetch the Apptainer images needed for the workflow, run:
85+
To fetch the Apptainer image needed for the workflow, run:
8686

8787
```bash
8888
bash bin/prepull_apptainer.sh config/software/by_docker_image.config
8989
```
9090
> Note: This command should be run in the directory containing the GL_RefAnnotTable-A_1.1.0 folder downloaded in [step 2](#2-download-the-workflow-files). Depending on your network speed, this may take approximately 20 minutes.
9191
92-
Once complete, an apptainer folder containing the Apptainer images will be created. Export this folder as an Apptainer configuration environment variable:
92+
Once complete, an apptainer folder containing the Apptainer image will be created. Export this folder as an Apptainer configuration environment variable:
9393

9494
```bash
9595
export APPTAINER_CACHEDIR=$(pwd)/apptainer
@@ -111,9 +111,7 @@ bash -c "cd /work && Rscript GL-DPPD-7110-A_build-genome-annots-tab.R 'Mus muscu
111111

112112
**Input data:**
113113

114-
- No input files are required.
115-
- Specify the target organism using a positional command line argument. `Mus musculus` is used in the example above.
116-
- To see a list of all available organisms, run `Rscript GL-DPPD-7110-A_build-genome-annots-tab.R` without positional arguments. The correct argument for each organism can also be found in the 'species' column of the [GL-DPPD-7110-A_annotations.csv](../../Pipeline_GL-DPPD-7110_Versions/GL-DPPD-7110-A/GL-DPPD-7110-A_annotations.csv)
114+
- No input files are required. Specify the target organism using a positional command line argument. `Mus musculus` is used in the example above. To see a list of all available organisms, run `Rscript GL-DPPD-7110-A_build-genome-annots-tab.R` without positional arguments. The correct argument for each organism can also be found in the 'species' column of the [GL-DPPD-7110-A_annotations.csv](../../Pipeline_GL-DPPD-7110_Versions/GL-DPPD-7110-A/GL-DPPD-7110-A_annotations.csv)
117115
- Optional: a reference table CSV can be supplied as a second positional argument instead of using the default [GL-DPPD-7110-A_annotations.csv](../../Pipeline_GL-DPPD-7110_Versions/GL-DPPD-7110-A/GL-DPPD-7110-A_annotations.csv)
118116

119117
**Output data:**
@@ -225,8 +223,7 @@ Rscript GL-DPPD-7110-A_build-genome-annots-tab.R 'Mus musculus'
225223

226224
**Input data:**
227225

228-
- No input files are required. Specify the target organism using a positional command line argument. `Mus musculus` is used in the example above. To see a list of all available organisms, run `Rscript GL-DPPD-7110-A_build-genome-annots-tab.R` without positional arguments. The correct argument for each organism can also be found in the 'species' column of [GL-DPPD-7110-A_annotations.csv](../../Pipeline_GL-DPPD-7110_Versions/GL-DPPD-7110-A/GL-DPPD-7110-A_annotations.csv)
229-
226+
- No input files are required. Specify the target organism using a positional command line argument. `Mus musculus` is used in the example above. To see a list of all available organisms, run `Rscript GL-DPPD-7110-A_build-genome-annots-tab.R` without positional arguments. The correct argument for each organism can also be found in the 'species' column of the [GL-DPPD-7110-A_annotations.csv](../../Pipeline_GL-DPPD-7110_Versions/GL-DPPD-7110-A/GL-DPPD-7110-A_annotations.csv)
230227
- Optional: a reference table CSV can be supplied as a second positional argument instead of using the default [GL-DPPD-7110-A_annotations.csv](../../Pipeline_GL-DPPD-7110_Versions/GL-DPPD-7110-A/GL-DPPD-7110-A_annotations.csv)
231228

232229
**Output data:**

0 commit comments

Comments
 (0)