nf-core · jannikseidelQBiC · Oct 22, 2024 · Oct 21, 2024 · Oct 21, 2024 · Oct 21, 2024
diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -3,7 +3,7 @@
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
-## v1.1.0dev - [date]
+## v1.1.0 - Kombjuudr - [2024-10-23]
 
 ### `Added`
 
@@ -58,7 +58,7 @@ Changed default values of parameters:
 Updated and added dependencies
 | Tool | Previous version | Current version |
 | ------- | ---------------- | --------------- |
-| bbmap | - | 39.06 |
+| bbmap | - | 39.10 |
 | blastn | 2.14.1 | 2.15.0 |
 | multiQC | 1.21 | 1.25.1 |
 | kraken2 | 2.1.2 | 2.1.3 |

diff --git a/assets/email_template.html b/assets/email_template.html
@@ -4,7 +4,7 @@
   <meta http-equiv="X-UA-Compatible" content="IE=edge">
   <meta name="viewport" content="width=device-width, initial-scale=1">
 
  <meta name="description" content="nf-core/detaxizer: A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxa to identify (and remove) are Homo and Homo sapiens. Removal is optional.">
+  <meta name="description" content="nf-core/detaxizer: A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Removal is optional.">
   <title>nf-core/detaxizer Pipeline Report</title>
 </head>
 <body>

diff --git a/assets/multiqc_config.yml b/assets/multiqc_config.yml
@@ -1,7 +1,7 @@
 report_comment: >
-  This report has been generated by the <a href="https://github.com/nf-core/detaxizer/tree/dev" target="_blank">nf-core/detaxizer</a>
+  This report has been generated by the <a href="https://github.com/nf-core/detaxizer/releases/tag/1.1.0" target="_blank">nf-core/detaxizer</a>
   analysis pipeline. For information about how to interpret these results, please see the
-  <a href="https://nf-co.re/detaxizer/dev/docs/output" target="_blank">documentation</a>.
+  <a href="https://nf-co.re/detaxizer/1.1.0/docs/output" target="_blank">documentation</a>.
 report_section_order:
   "nf-core-detaxizer-methods-description":
     order: -1000

diff --git a/conf/test_blastn.config b/conf/test_blastn.config
@@ -21,7 +21,7 @@ process {
 
 params {
     config_profile_name        = 'Test profile enabling blastn validation step'
-    config_profile_description = 'Minimal test dataset to check pipeline function when skipping blastn'
+    config_profile_description = 'Minimal test dataset to check pipeline function when using blastn'
 
 
     // Input data

diff --git a/conf/test_full.config b/conf/test_full.config
@@ -20,7 +20,7 @@ params {
     fasta_bbduk                             = "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa"
 
     // Kraken2 test db
-    kraken2db                               = "https://genome-idx.s3.amazonaws.com/kraken/k2_standard_08gb_20240605.tar.gz"
+    kraken2db                               = "https://genome-idx.s3.amazonaws.com/kraken/k2_standard_08gb_20240904.tar.gz"
     kraken2confidence                       = 0.00
     tax2filter                              = 'Homo sapiens'
 

diff --git a/modules.json b/modules.json
@@ -7,23 +7,23 @@
                 "nf-core": {
                     "bbmap/bbduk": {
                         "branch": "master",
-                        "git_sha": "9c769a7902405e7c799b215610b33bffdd087aad",
+                        "git_sha": "a1abf90966a2a4016d3c3e41e228bfcbd4811ccc",
                         "installed_by": ["modules"],
                         "patch": "modules/nf-core/bbmap/bbduk/bbmap-bbduk.diff"
                     },
                     "blast/blastn": {
                         "branch": "master",
-                        "git_sha": "4262a04142431275e54e1f4b413628a2201ed6e6",
+                        "git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
                         "installed_by": ["modules"]
                     },
                     "blast/makeblastdb": {
                         "branch": "master",
-                        "git_sha": "a01c66c96e0bc610ad126e7adc4a94cd4acd1b48",
+                        "git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
                         "installed_by": ["modules"]
                     },
                     "fastp": {
                         "branch": "master",
-                        "git_sha": "1ceaa8ba4d0fd886dbca0e545815d905b7407de7",
+                        "git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
                         "installed_by": ["modules"]
                     },
                     "fastqc": {
@@ -33,7 +33,7 @@
                     },
                     "kraken2/kraken2": {
                         "branch": "master",
-                        "git_sha": "ca87ad032a62f025f0c373facacef2df0c5411b2",
+                        "git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
                         "installed_by": ["modules"]
                     },
                     "multiqc": {

diff --git a/modules/nf-core/bbmap/bbduk/bbmap-bbduk.diff b/modules/nf-core/bbmap/bbduk/bbmap-bbduk.diff
diff --git a/modules/nf-core/bbmap/bbduk/environment.yml b/modules/nf-core/bbmap/bbduk/environment.yml
diff --git a/modules/nf-core/bbmap/bbduk/main.nf b/modules/nf-core/bbmap/bbduk/main.nf
diff --git a/modules/nf-core/bbmap/bbduk/meta.yml b/modules/nf-core/bbmap/bbduk/meta.yml
diff --git a/modules/nf-core/bbmap/bbduk/tests/main.nf.test b/modules/nf-core/bbmap/bbduk/tests/main.nf.test