Output regions from Akita

[ahmedabbas811]

Hello,

Is there available some predicted regions from Akita for GM12878 cell line or H1 cell line, preferably "observed" rather than "observed/expected"

I am trying to go through the tutorial but have problem with akita_data:

akita_data --sample 0.05 -g /work/pathology/s206442/dbet_data/Akita/data/hg38_gaps_binsize2048_numconseq10.bed -l 1048576 --crop 65536 --local -o /work/pathology/s206442/dbet_data/Akita/data/1m --as_obsexp -p 1 -t 0.1 -v 0.1 -w 2048 --snap 2048 --stride_train 262144 --stride_test 32768 /work/pathology/s206442/dbet_data/Akita/data/hg38.ml.fa /work/pathology/s206442/dbet_data/Akita/data/microc_cools.txt
It gives me this error

Input In [33]
akita_data --sample 0.05 -g /work/pathology/s206442/dbet_data/Akita/data/hg38_gaps_binsize2048_numconseq10.bed -l 1048576 --crop 65536 --local -o /work/pathology/s206442/dbet_data/Akita/data/1m --as_obsexp -p 1 -t 0.1 -v 0.1 -w 2048 --snap 2048 --stride_train 262144 --stride_test 32768 /work/pathology/s206442/dbet_data/Akita/data/hg38.ml.fa /work/pathology/s206442/dbet_data/Akita/data/microc_cools.txt
^
SyntaxError: invalid decimal literal

Thanks

[davek44]

Hi, it seems like your error message might have been truncated. Can you tell what line of the script it's throwing that SyntaxError on? Does the script only crash on your own data, or does it crash on our demo data, too?