Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Bump v1.1.0 #157

Merged
merged 5 commits into from
Jun 3, 2024
Merged

Bump v1.1.0 #157

Show file tree
Hide file tree
Changes from 4 commits
Commits
Show all changes
5 commits
Select commit Hold shift + click to select a range
8e7f23b
Bump version 1.1.0 on changelog
JoseEspinosa May 31, 2024
e24b6e5
Bump version 1.1.0 to images
JoseEspinosa May 31, 2024
2bef5e7
Bump version 1.1.0 to readme
JoseEspinosa May 31, 2024
b29d676
Some minor corrections
JoseEspinosa May 31, 2024
2bec617
Bump v1.1.0 to multiqc config
JoseEspinosa Jun 1, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
2 changes: 1 addition & 1 deletion CHANGELOG.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,7 +3,7 @@
The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).

## 1.1.0dev - [date]
## [[1.1.0](https://github.com/nf-core/proteinfold/releases/tag/1.1.0)] - 2025-06-07

### Enhancements & fixes

Expand Down
2 changes: 1 addition & 1 deletion README.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -55,7 +55,7 @@ nextflow run nf-core/proteinfold \
--outdir <OUTDIR>
```

The pipeline takes care of downloading the required databases and parameters required by AlphaFold2, Colabfold or ESMFold. In case you have already downloaded the required files, you can skip this step by providing the path using the corresponding parameter [`--alphafold2_db`], [`--colabfold_db`] or [`--esmfold_db`]
The pipeline takes care of downloading the databases and parameters required by AlphaFold2, Colabfold or ESMFold. In case you have already downloaded the required files, you can skip this step by providing the path to the databases in parameters using the corresponding parameter [`--alphafold2_db`], [`--colabfold_db`] or [`--esmfold_db`]

- Typical command to run AlphaFold2 mode:

Expand Down
2 changes: 1 addition & 1 deletion modules/local/colabfold_batch.nf
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -7,7 +7,7 @@ process COLABFOLD_BATCH {
error("Local COLABFOLD_BATCH module does not support Conda. Please use Docker / Singularity / Podman instead.")
}

container "nf-core/proteinfold_colabfold:dev"
container "nf-core/proteinfold_colabfold:1.1.0"

input:
tuple val(meta), path(fasta)
Expand Down
1 change: 1 addition & 0 deletions modules/local/download_pdbmmcif.nf
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -2,6 +2,7 @@
* Download PDB MMCIF database
*/
process DOWNLOAD_PDBMMCIF {
tag "${source_url_pdb_mmcif}--${source_url_pdb_obsolete}"
label 'process_low'
label 'error_retry'

Expand Down
2 changes: 1 addition & 1 deletion modules/local/mmseqs_colabfoldsearch.nf
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -7,7 +7,7 @@ process MMSEQS_COLABFOLDSEARCH {
error("Local MMSEQS_COLABFOLDSEARCH module does not support Conda. Please use Docker / Singularity / Podman instead.")
}

container "nf-core/proteinfold_colabfold:dev"
container "nf-core/proteinfold_colabfold:1.1.0"

input:
tuple val(meta), path(fasta)
Expand Down
2 changes: 1 addition & 1 deletion modules/local/run_alphafold2.nf
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -10,7 +10,7 @@ process RUN_ALPHAFOLD2 {
error("Local RUN_ALPHAFOLD2 module does not support Conda. Please use Docker / Singularity / Podman instead.")
}

container "nf-core/proteinfold_alphafold2_standard:dev"
container "nf-core/proteinfold_alphafold2_standard:1.1.0"

input:
tuple val(meta), path(fasta)
Expand Down
2 changes: 1 addition & 1 deletion modules/local/run_alphafold2_msa.nf
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -10,7 +10,7 @@ process RUN_ALPHAFOLD2_MSA {
error("Local RUN_ALPHAFOLD2_MSA module does not support Conda. Please use Docker / Singularity / Podman instead.")
}

container "nf-core/proteinfold_alphafold2_msa:dev"
container "nf-core/proteinfold_alphafold2_msa:1.1.0"

input:
tuple val(meta), path(fasta)
Expand Down
2 changes: 1 addition & 1 deletion modules/local/run_alphafold2_pred.nf
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -10,7 +10,7 @@ process RUN_ALPHAFOLD2_PRED {
error("Local RUN_ALPHAFOLD2_PRED module does not support Conda. Please use Docker / Singularity / Podman instead.")
}

container "nf-core/proteinfold_alphafold2_split:dev"
container "nf-core/proteinfold_alphafold2_split:1.1.0"

input:
tuple val(meta), path(fasta)
Expand Down
2 changes: 1 addition & 1 deletion nextflow.config
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -322,7 +322,7 @@ manifest {
description = """Protein 3D structure prediction pipeline"""
mainScript = 'main.nf'
nextflowVersion = '!>=23.04.0'
version = '1.1.0dev'
version = '1.1.0'
doi = '10.5281/zenodo.7629996'
}

Expand Down
Loading