nf-core/gemmi/cif2json @ 0.0.0-0c7146d
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 | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:43:51 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fgemmi%2Fcif2json/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/gemmi/cif2json/blobs/sha256:f45b864d33f5dec5454ec04be75042a05a7963521d5566551d990e43750fed39 |
| Size | 2.3 KB |
| Checksum | sha256:f45b864d33f5dec5454ec04be75042a05a7963521d5566551d990e43750fed39 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:43:51 (UTC) | 1 | 2.3 KB | - |