nf-core/gemmi/cif2json @ 0.0.0-6c4ed3a
Summary
Convert macromolecular structure files from mmCIF format to JSON format using gemmi.
Get started
Add the following snippet to your workflow script to include this module.
include { GEMMI_CIF2JSON } from 'nf-core/gemmi/cif2json'
License
MIT License
Process
Name
|
GEMMI_CIF2JSON |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
cif
file
|
macromolecular structure file in mmCIF (.cif) format *.cif
|
Output
2 channels
#1
json
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.json
file
|
Structure file converted to JSON format *.json
|
#2
versions_gemmi
tuple
${task.process}
string
|
The name of the process |
|---|---|
gemmi
string
|
The name of the tool |
gemmi --version | sed -E 's/^gemmi ([^ ]+).*/\1/'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| gemmi | Gemmi is a library and command-line tool for parsing, manipulating, and converting macromolecular structural biology data formats such as mmCIF, PDB, and MTZ. | https://gemmi.readthedocs.io/ |
| Version | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:20:59 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fgemmi%2Fcif2json/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/gemmi/cif2json/blobs/sha256:c51ba854c6d605c5aa9a5a6914155f7917466472136e4cf11a9355997f25f1f8 |
| Size | 2.4 KB |
| Checksum | sha256:c51ba854c6d605c5aa9a5a6914155f7917466472136e4cf11a9355997f25f1f8 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:20:59 (UTC) | 3 | 2.4 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:05:28 (UTC) | 3 | 2.3 KB |