I was previously able to run multiqc with htstream support. However, I have recently upgraded to a new computer (ubuntu 22.04.1) and my new multiqc installation doesn't recognize the "-m htstream" option even after installing it using the latest version from git:
The command I used previously in my pipeline no longer works stating that "htstream" is not in the modules list. However, there is a htstream directory in the source code.
`$ qcdir=qc/
$ multiqc --interactive -m htstream -m fastqc -m fastp -o ${qcdir} ${qcdir}
Usage: multiqc [OPTIONS] [ANALYSIS DIRECTORY]
This is MultiQC v1.15.dev0
For more help, run 'multiqc --help' or visit http://multiqc.info
╭─ Error ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╮
│ Invalid value for '-m' / '--module': 'htstream' is not one of 'adapterRemoval', 'afterqc', 'anglerfish', 'bamtools', 'bbduk', 'bbmap', 'bcftools', 'bcl2fastq', 'bclconvert', 'biobambam2', 'biobloomtools', │
│ 'biscuit', 'bismark', 'bowtie1', 'bowtie2', 'busco', 'bustools', 'ccs', 'cellranger', 'checkqc', 'clipandmerge', 'clusterflow', 'conpair', 'custom_content', 'cutadapt', 'damageprofiler', 'dedup', │
│ 'deeptools', 'diamond', 'disambiguate', 'dragen', 'dragen_fastqc', 'eigenstratdatabasetools', 'fastp', 'fastq_screen', 'fastqc', 'featureCounts', 'fgbio', 'filtlong', 'flash', 'flexbar', 'gatk', │
│ 'gffcompare', 'goleft_indexcov', 'gopeaks', 'happy', 'hicexplorer', 'hicpro', 'hicup', 'hifiasm', 'hisat2', 'homer', 'hops', 'htseq', 'humid', 'interop', 'ivar', 'jcvi', 'jellyfish', 'kaiju', 'kallisto', │
│ 'kat', 'kraken', 'leehom', 'lima', 'longranger', 'macs2', 'malt', 'methylQA', 'minionqc', 'mirtop', 'mirtrace', 'mosdepth', 'motus', 'mtnucratio', 'multivcfanalyzer', 'nanostat', 'nextclade', 'ngsderive', │
│ 'odgi', 'optitype', 'pangolin', 'pbmarkdup', 'peddy', 'phantompeakqualtools', 'picard', 'porechop', 'preseq', 'prinseqplusplus', 'prokka', 'purple', 'pychopper', 'pycoqc', 'qc3C', 'qorts', 'qualimap', │
│ 'quast', 'rna_seqc', 'rockhopper', 'rsem', 'rseqc', 'salmon', 'sambamba', 'samblaster', 'samtools', 'sargasso', 'sentieon', 'seqyclean', 'sexdeterrmine', 'sickle', 'skewer', 'slamdunk', 'snippy', │
│ 'snpeff', 'snpsplit', 'somalier', 'sortmerna', 'stacks', 'star', 'supernova', 'theta2', 'tophat', 'trimmomatic', 'umitools', 'varscan2', 'vcftools', 'vep', 'verifybamid', 'whatshap'. │
╰──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╯
`