---
name: "indigo-cano"
section: "1"
platform: "linux"
package: "indigo-utils"
version: "1.2.3-3.1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/indigo-cano"
---

# indigo-cano(1)

produce canonical SMILES or layered code for molecules in MOL or SDF format

## NAME

indigo-cano - produce canonical SMILES or layered code for molecules in MOL or SDF format

## SYNOPSIS

**indigo-cano** *filename.{mol,rdf,rdf.gz,sdf,sdf.gz,smi}* \[**parameters**\]

**indigo-cano -** *SMILES* \[**parameters**\]

## DESCRIPTION

**indigo-cano** is used to produce canonical SMILES or layered code for molecules in MOL or SDF format.

## OPTIONS

**indigo-cano** expects a file or SMILES code on the standard input, which then might be followed by one or more of the following parameters.

- **-smiles**

  Output canonical SMILES (default)

- **-layered**

  Output canonical layered code

- **-id** *\<string\>*

  ID field with the given name in an SDF file

- **-no-arom**

  Do not aromatize molecules

- **-no-tetrahedral**

  Ignore tetrahedral stereocenters

- **-no-cistrans**

  Ignore cis-trans bonds information

## EXAMPLES

```
indigo-cano infile.sdf
indigo-cano infile.sdf.gz -id molregno > results.txt
indigo-cano infile.smi -layered -no-cistrans
indigo-cano - 'NC1C=CC(O)=CC=1'
```

## AUTHOR

This manual page was written by Daniel Leidert \<dleidert@debian.org\>, for the Debian GNU/Linux system (but may be used by others).