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GitHub / socialgene / sgnf

SocialGene's Nextflow Pipeline

JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/socialgene%2Fsgnf

Stars: 0
Forks: 1
Open Issues: 10

License: mit
Language: Nextflow
Repo Size: 2.82 MB
Dependencies: 68

Created: about 2 years ago
Updated: 3 months ago
Last pushed: 3 months ago
Last synced: 3 months ago

Funding links: https://github.com/sponsors/chasemc

Files

Readme

Dependencies

.github/workflows/branch.yml actions

mshick/add-pr-comment v1 composite

.github/workflows/ci.yml actions

actions/checkout v3 composite
nf-core/setup-nextflow v1 composite

.github/workflows/cla.yml actions

contributor-assistant/github-action v2.3.0 composite

.github/workflows/clean-up.yml actions

actions/stale v7 composite

.github/workflows/docker.yml actions

actions/checkout v3 composite
docker/build-push-action v4 composite
docker/login-action f4ef78c080cd8ba55a85445d5b36e214a81df20a composite
docker/metadata-action v4 composite
docker/setup-buildx-action v2 composite
docker/setup-qemu-action v2 composite

.github/workflows/fix-linting.yml actions

actions/checkout v3 composite
actions/setup-node v3 composite

.github/workflows/linting.yml actions

actions/checkout v3 composite
actions/setup-node v3 composite
actions/setup-python v4 composite
nf-core/setup-nextflow v1 composite
psf/black stable composite

.github/workflows/linting_comment.yml actions

dawidd6/action-download-artifact v2 composite
marocchino/sticky-pull-request-comment v2 composite

.github/workflows/release_please.yml actions

google-github-actions/release-please-action v3 composite

dockerfiles/antismash/antismash-base/environment.yaml conda

antismash 6.1.1
procps-ng
python 3.10

dockerfiles/hmmer/environment.yaml conda

coreutils
gzip >=1.12
hmmer >=3.3.2
procps-ng

dockerfiles/hmmer_plus/environment.yaml conda

coreutils
curl
git
gzip >=1.12
hmmer >=3.3.2
procps-ng
unzip
wget

dockerfiles/sgpy/sgpy_base/environment.yaml conda

aspera-cli 3.9.6
bc >=1.07.1
biopython >=1.79
coreutils >=9.3
diamond 2.0.15
entrez-direct 16.2
git >=2.41
grep >=3.4
gzip >=1.12
hmmer 3.3.2
mmseqs2 13.45111
ncbi-datasets-cli 14.13.2
numpy >=1.24
openjdk >=17
pigz >=2.6
pip >=23.1.2
procps-ng >=4.0
python 3.10
rsync >=3.2.7
samtools 1.16.1
sed >=4.8
seqkit 2.3.0
tabix 1.11
wget >=1.20
zip >=3.0

dockerfiles/antismash/Dockerfile docker

chasemc2/antismash 6.1.1 build

dockerfiles/antismash/antismash-base/Dockerfile docker

mambaorg/micromamba 1.4.3 build

dockerfiles/hmmer/Dockerfile docker

mambaorg/micromamba 1.1.0 build

dockerfiles/hmmer_plus/Dockerfile docker

mambaorg/micromamba 1.1.0 build

dockerfiles/minimal/Dockerfile docker

python alpine3.17 build

dockerfiles/sgpy/Dockerfile docker

chasemc2/sgpy-base 1.0.1 build

dockerfiles/sgpy/sgpy_base/Dockerfile docker

mambaorg/micromamba 1.1.0 build