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updated CHANGELOG.md
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jannikseidel committed Oct 16, 2024
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Expand Up @@ -42,9 +42,13 @@ Changed default values of parameters:
| `cutoff_tax2filter` | 2 | 0 |
| `cutoff_tax2keep` | 0.5 | 0.0 |

### `Changed`

- [PR #42](https://github.com/nf-core/detaxizer/pull/42) - Template update for nf-core/tools 3.0.2, for details read [this blog post](https://nf-co.re/blog/2024/tools-3_0_0#important-template-updates)

### `Fixed`

- [PR #33](https://github.com/nf-core/detaxizer/pull/33) - Addition of quotation marks in `parse_kraken2report.nf` prevents failure of the pipeline when using a taxon with space (e.g. Homo sapiens) with the `tax2filter` parameter.
- [PR #33](https://github.com/nf-core/detaxizer/pull/33) - Addition of quotation marks in `parse_kraken2report.nf` prevents failure of the pipeline when using a taxon with space (e.g. Homo sapiens) with the `tax2filter` parameter
- [PR #34](https://github.com/nf-core/detaxizer/pull/34) - Made validation via blastn optional by default
- [PR #34](https://github.com/nf-core/detaxizer/pull/34) - Changed parameter `fasta` to `fasta_blastn`

Expand All @@ -55,6 +59,7 @@ Updated and added dependencies
| ------- | ---------------- | --------------- |
| bbmap | - | 39.06 |
| blastn | 2.14.1 | 2.15.0 |
| multiQC | 1.21 | 1.25.1 |
| kraken2 | 2.1.2 | 2.1.3 |
| seqkit | 2.8.0 | 2.8.2 |

Expand All @@ -64,6 +69,9 @@ Updated and added dependencies
| ------------- | ------------------- | ------------------------------------------------------------------------------------ |
| `fasta` | `fasta_blastn` | Introduction of fasta_bbduk; necessary to further distinguish the two parameters |
| `skip_blastn` | `validation_blastn` | blastn is now to be enabled on purpose; too resource intensive for a default setting |
| `max_cpus` | - | New behavior of [nextflow](https://www.nextflow.io/docs/latest/reference/process.html#resourcelimits), `resourceLimits` can now be set via a config |
| `max_memory` | - | New behavior of [nextflow](https://www.nextflow.io/docs/latest/reference/process.html#resourcelimits), `resourceLimits` can now be set via a config |
| `max_time` | - | New behavior of [nextflow](https://www.nextflow.io/docs/latest/reference/process.html#resourcelimits), `resourceLimits` can now be set via a config |

## v1.0.0 - Kobbfarbad - [2024-03-26]

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