---
name: "cif-merge"
section: "1"
platform: "linux"
package: "cif-tools"
version: "1.0.12-4"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/cif-merge"
---

# cif-merge(1)

Merge the content of a modified PDB file into a mmCIF file

## NAME

cif-merge - Merge the content of a modified PDB file into a mmCIF file

## SYNOPSIS

cif-merge \[options\] input-file donor-file \[output-file\]

## DESCRIPTION

Unfortunately, a lot of tools in the crystallographic area are still not capable of working with mmCIF files in a proper way, forcing you to feed them PDB files. Or, when they do support mmCIF, they write out mutilated files without lots of the original information contained in the input file.

To remedy this, *cif-merge* can be used to create a new mmCIF file containing information from the processed PDB (or mmCIF) file and fill in the blanks using a donor mmCIF file.

The **input-file** is the file that was processed by an old tool, missing the additional data. The **donor-file** contains the extra information to be copied. When **output-file** is not specified, the result is written to stdout.

## OPTIONS

- **--verbose**,**-v**

  Be more verbose, useful to diagnose validation errors.

## AUTHOR

Written by Maarten L. Hekkelman \<maarten@hekkelman.com\>

## REPORTING BUGS

Report bugs at https://github.com/PDB-REDO/cif-tools/issues

## SEE ALSO

**cif-diff**, **cif-grep**, **cif-validate**,  **cif2pdb**, **mmCQL**, **pdb2cif**.