Reproducible full report

[nr0cinu]

Hi,

would be nice if there would be a command line flag to enable reproducible full reports, i.e., the report is always the same if the input is the same. Right now, with the processing time and speed being added, the report always changes.

Thanks,
Bela

[rhpvorderman]

Would the json report fulfill these requirements? I do not see any speed reporting there.

[nr0cinu]

Kind of, but that is the machine readable report, while the full report is human readable ;)

[marcelm]

Good idea. Note that I purposefully omitted runtime from the JSON output so that it would be reproducible. But the normal report is older, and I didn’t think about reproducible output at that time.

I’m trying to avoid adding more command-line options if I can, so I’m wondering whether writing the final runtime to stderr would be an option. Cutadapt currently sends the report to stdout (if you use -o to send trimmed reads to a file) and prints a progress report to stderr that already contains the runtime. This line:

[ 8<---------] 00:00:03     1,740,000 reads @   1.7 µs/read;  35.26 M reads/minute

So information about runtime is already available and doesn’t actually need to be in the part of the report that is sent to stdout.

@nr0cinu Do you use Cutadapt with -o?

[nr0cinu]

Do you use Cutadapt with -o?

I do.

So information about runtime is already available and doesn’t actually need to be in the part of the report that is sent to stdout.

that would work for me :)