issue with fatstq-dump

[californiauser2]

hello,

I could not use the automatic install , so I follow the set-by-step install

thinks looked ok, except for fastq-dump

I installed this:
curl http://data.biostarhandbook.com/sratools.sh | bash

and now almost everything has an error message:

but now all are errors:

Checking symptoms ...

bwa --> ERROR

datamash --> ERROR

fastqc -h --> ERROR

hisat2 --> ERROR

seqret -h --> ERROR

featureCounts --> ERROR

efetch ... OK

esearch ... OK

samtools --> ERROR

fastq-dump ... OK

bowtie2 --> ERROR

bcftools --> ERROR

seqtk --> ERROR

seqkit --> ERROR

bio --> ERROR

fastq-dump -X 1 -Z SRR1553591 ... OK

any suggestions?

[ by the way - I probably have spent 5 hours trying to install the system. I have a macos M1, sonoma 14.6 Beta (23G5075b). ]

[ialbert]

this error sounds like your environment is not activated, make sure to activate it

micromamba activate bioinfo