---
name: "vcf2genomicsdb"
section: "1"
platform: "linux"
package: "genomicsdb-tools"
version: "1.4.4-3"
release: "Debian 12 (Bookworm)"
platforms: ["linux"]
url: "https://new.carta.tech/vcf2genomicsdb"
---

# vcf2genomicsdb(1)

VCF data converter for GenomicsDB

## NAME

vcf2genomicsdb - VCF data converter for GenomicsDB

## SYNOPSIS

**vcf2genomicsdb** \[options\] \<loader\_json\_config\_file\>

## OPTIONS

**--help**, **-h**

**--version**

**--progress**, **-p**

-

  Show import progress

-

  specify minimum amount of time between progress messages with **--progress=**\<interval\> or **-p**\<interval\> where \<interval\> is a floating point number. Default units are seconds, explicitly specify seconds, minutes, or hours by appending s, m, or h to the end of the number

**--tmp-directory**, **-T**

-

  Specify temporary directory (stores some temporary files during the import process, default is */tmp*)

**--rank**, **-r**

-

  Manually assign MPI rank of process, determines on which partition the process will operate

**--split-files**

-

  Split the files specified by the callset mapping JSON file according to the column partitions in the loader JSON

-

  resulting files will be placed in the same directory as the originals default behavior is to generate split files only for the partition corresponding to the rank

-

  Modifiers to **--split-files**:

-

  **--split-all-partitions** Overrides **--split-files** default behavior and instead creates split files for all partitions **--split-files-results-directory** Specify where to place split files, overrides default behavior of placing them in the same directory as originals **--split-output-filename** Create a split file for one column partition and one VCF

-

  e.g. vcf2genomicsdb \<loader.json\> **--rank=**\<rank\> **--split-files** **--split-output-filename=**\<output\_path\> \<input.vcf.gz\>

-

  **--split-callset-mapping-file**

-

  Create callset mapping files containing the paths to the generated split files, one callset per partition