fix alphafold2_ptm

nf-core · Oct 28, 2024 · 2ada069 · 2ada069
1 parent 9bea0dc
commit 2ada069
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Showing 3 changed files with 5 additions and 5 deletions.
diff --git a/README.md b/README.md
@@ -97,7 +97,7 @@ The pipeline takes care of downloading the databases and parameters required by
       --colabfold_db <null (default) | PATH> \
       --num_recycles_colabfold 3 \
       --use_amber <true/false> \
-      --colabfold_model_preset "AlphaFold2-ptm" \
+      --colabfold_model_preset "alphafold2_ptm" \
       --use_gpu <true/false> \
       --db_load_mode 0
       -profile <docker/singularity/podman/shifter/charliecloud/conda/institute>
@@ -115,7 +115,7 @@ The pipeline takes care of downloading the databases and parameters required by
       --colabfold_db <null (default) | PATH> \
       --num_recycles_colabfold 3 \
       --use_amber <true/false> \
-      --colabfold_model_preset "AlphaFold2-ptm" \
+      --colabfold_model_preset "alphafold2_ptm" \
       --use_gpu <true/false> \
       -profile <docker/singularity/podman/shifter/charliecloud/conda/institute>
   ```

diff --git a/docs/usage.md b/docs/usage.md
@@ -236,7 +236,7 @@ nextflow run nf-core/proteinfold \
       --colabfold_db <null (default) | DB_PATH> \
       --num_recycles_colabfold 3 \
       --use_amber <true/false> \
-      --colabfold_model_preset "AlphaFold2-ptm" \
+      --colabfold_model_preset "alphafold2_ptm" \
       --use_gpu <true/false> \
       --db_load_mode 0 \
       -profile <docker/singularity/.../institute>
@@ -254,7 +254,7 @@ nextflow run nf-core/proteinfold \
       --colabfold_db <null (default) | DB_PATH> \
       --num_recycles_colabfold 3 \
       --use_amber <true/false> \
-      --colabfold_model_preset "AlphaFold2-ptm" \
+      --colabfold_model_preset "alphafold2_ptm" \
       --use_gpu <true/false> \
       -profile <docker/singularity/.../institute>
 ```

diff --git a/workflows/colabfold.nf b/workflows/colabfold.nf
@@ -91,7 +91,7 @@ workflow COLABFOLD {
         //
         // MODULE: Run mmseqs
         //
-        if (params.colabfold_model_preset != 'AlphaFold2-ptm') {
+        if (params.colabfold_model_preset != 'alphafold2_ptm') {
             MULTIFASTA_TO_CSV(
                 ch_fasta
             )