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fd604a1
🔧 update image and bioconda container to latest version
enryH Oct 16, 2025
a1d39a8
✅ update test snapshots
enryH Oct 16, 2025
3b4ebd1
Merge branch 'master' into update_vuegen
famosab Oct 17, 2025
5eb02c4
:bug: fix display of version of vuegen
enryH Oct 20, 2025
8de97ed
Merge branch 'master' into update_vuegen
famosab Oct 20, 2025
9b17dc0
:art: display versions.yml content in snapshots
enryH Oct 20, 2025
0956008
Merge branch 'master' into update_vuegen
enryH Oct 22, 2025
b8e8add
🔧 add Dockerfile to install lastet PyPI vuegen version
enryH Oct 22, 2025
6bf04c9
🚧 add wave containers
enryH Oct 22, 2025
9fe09f6
:fire: remove README again
enryH Oct 24, 2025
d9f4c67
Merge branch 'master' into update_vuegen
enryH Oct 24, 2025
3493280
:fire: remove Dockerfile again
enryH Oct 24, 2025
e9b110f
Merge branch 'master' into update_vuegen
enryH Oct 28, 2025
f25c416
🚧 try to follow Mahesh's advice
enryH Oct 28, 2025
15c1836
Merge branch 'master' into update_vuegen
enryH Oct 28, 2025
f71f78c
:bug: add explicit cache directory
enryH Oct 29, 2025
68f79c7
Merge branch 'master' into update_vuegen
enryH Oct 29, 2025
2791af4
🔧 bump to Python 3.12 and remove channel prefix
enryH Oct 29, 2025
58ef775
:wrench: specify singularity image with https
enryH Oct 29, 2025
d27f0a9
Merge branch 'master' into update_vuegen
enryH Nov 26, 2025
173470e
🚧 set user specified R libarary folder
enryH Nov 26, 2025
f3e7838
Merge branch 'master' into update_vuegen
enryH Nov 26, 2025
b025563
Merge branch 'master' into update_vuegen
enryH Nov 27, 2025
9ef97bd
⏪ make docker and conda work again (using nf-core 3.5.1)
enryH Nov 27, 2025
84ebadc
Merge branch 'master' into update_vuegen
enryH Nov 27, 2025
870f20d
Merge branch 'master' into update_vuegen
enryH Dec 2, 2025
7dceb98
:wrench: switch again to custom docker image instead of wave
enryH Dec 2, 2025
d18ee75
:bug: try to add font package
enryH Dec 2, 2025
d75d658
:fire: remove code moved to image
enryH Dec 3, 2025
4dfb9c6
⏪ add back conda quarto flag
enryH Dec 3, 2025
9b397f0
Merge branch 'master' into update_vuegen
enryH Dec 3, 2025
0f35782
:art: remove trailing whitespace
enryH Dec 3, 2025
e432238
:art: format again
enryH Dec 3, 2025
3abd507
:art: hopefully the last trailing whitespace
enryH Dec 3, 2025
76a567f
:memo: document the build process and why the container is needed
enryH Dec 3, 2025
2972bf0
Merge branch 'master' into update_vuegen
enryH Dec 4, 2025
cbe2d04
Update image with nf-core one
enryH Dec 4, 2025
afd3840
Update container name
enryH Dec 4, 2025
928a7d9
Apply suggestion from @mashehu
mashehu Dec 4, 2025
f8a24f8
Merge branch 'master' into update_vuegen
enryH Dec 5, 2025
a1606e6
Apply suggestion from @mashehu
mashehu Dec 5, 2025
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27 changes: 27 additions & 0 deletions modules/nf-core/vuegen/README.md
Original file line number Diff line number Diff line change
@@ -0,0 +1,27 @@
# VueGen module

## Images using wave

Cached images for 0.5.1 version available on wave, see
[docs](https://docs.seqera.io/wave#seqera-containers---the-community-container-registry)

platform | version | image
-------- | ------- | -----
docker | linux/amd64 | community.wave.seqera.io/library/vuegen_python:236414fc5cfce774
singularity | linux/amd64 | oras://community.wave.seqera.io/library/vuegen_python:1adb57ecbfa02088
docker | linux/arm64 | community.wave.seqera.io/library/vuegen_python:a1dc6490f5045706
singularity | linux/arm64 | oras://community.wave.seqera.io/library/vuegen_python:64670fcadedf151f

## Custom docker file

- check Docker best practices with hadolint, see
[docker-docs](https://docs.docker.com/build/building/best-practices/)


```bash
$ hadolint Dockerfile
Dockerfile:7 DL3008 warning: Pin versions in apt get install. Instead of `apt-get install <package>` use `apt-get install <package>=<version>`
Dockerfile:24 DL3059 info: Multiple consecutive `RUN` instructions. Consider consolidation.
Dockerfile:31 SC2211 warning: This is a glob used as a command name. Was it supposed to be in ${..}, array, or is it missing quoting?
Dockerfile:31 DL4006 warning: Set the SHELL option -o pipefail before RUN with a pipe in it. If you are using /bin/sh in an alpine image or if your shell is symlinked to busybox then consider explicitly setting your SHELL to /bin/ash, or disable this check
```
4 changes: 3 additions & 1 deletion modules/nf-core/vuegen/main.nf
Original file line number Diff line number Diff line change
@@ -1,7 +1,9 @@
process VUEGEN {
label 'process_single'
conda "${moduleDir}/environment.yml"
container "dtu_biosustain_dsp/vuegen:v0.5.1-nextflow"
container "${workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container
? 'oras://community.wave.seqera.io/library/vuegen_python:1adb57ecbfa02088'
: 'community.wave.seqera.io/library/vuegen_python:236414fc5cfce774'}"

input:
val input_type
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