Add more nf tests

nf-test.config

@@ -20,5 +20,6 @@ config {
     // load the necessary plugins
     plugins {
         load "[email protected]"
+        load "[email protected]"
     }
 }

tests/.nftignore

@@ -1,5 +1,6 @@
 .DS_Store
 multiqc/multiqc_data/fastqc_top_overrepresented_sequences_table.txt
+multiqc/multiqc_data/BETA-multiqc.parquet
 multiqc/multiqc_data/multiqc.parquet
 multiqc/multiqc_data/multiqc.log
 multiqc/multiqc_data/multiqc_data.json
@@ -9,24 +10,20 @@ multiqc/multiqc_data/llms-full.txt
 multiqc/multiqc_data/*.txt
 multiqc/multiqc_plots/{svg,pdf,png}/*.{svg,pdf,png}
 multiqc/multiqc_report.html
+pipeline_info/*.{html,json,txt,yml}
 fastqc/*_fastqc.{html,zip}
 fastqc/*/*fastqc.zip
-pipeline_info/*.{html,json,txt,yml}
+pipeline_info/*.{html,yml,json}
 bbduk/*.log
-nonpareil/*.{npa,npc,npl,npo,png,json,png,tsv,txt,pdf,csv}
-bracken/*combined_reports.txt
-centrifuge/*/*.mapped.fastq.gz
-centrifuge/*/*results.txt
-centrifuge/*/*.unmapped.fastq.gz
-diamond/*/*.{tsv,log,txt}
+centrifuge/*.{fastq.gz,txt}
+diamond/*/*.{tsv,log}
 fastp/*.{html,zip,json,log}
-kaiju/*/*.tsv
-kaiju/*.txt
-krona/*.html
 ganon/*/*.log
-kraken2/*/*.fastq.gz
-metaphlan/*/*.{biom,txt}
+kaiju/*/*.{tsv,txt}
+kraken2/*/*.{fastq.gz,txt}
+krona/*.html
+metaphlan/*/*.{biom,txt,sam}
+nonpareil/*.{npa,npc,npl,npo,png,csv,json,pdf}
+pipeline_info/*.{html,yml,json}
 porechop_abi/*.log
-samtools/*.bam.bai
-samtools/*.unmapped.bam
 taxpasta/*.tsv