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I am trying to generate random intervals but I get the following error:
python nullseq/nullseq.py -n 2315832 -l 22 --seq chr19_prdm9.fasta -o random_chr19_prdm9.fasta
Welcome to NullSeq *
Translation Table: 11
Operating Mode: Exisitng Sequence - Nucleotide
AAFreq :
I 0.1429
D 0.1429
T 0.2857
S 0.1429
E 0.1429
* 0.1429
GC content : 0.0
Length : 22
Number of sequence : 2315832
Traceback (most recent call last):
File "/Volumes/LOH LAB/Orion/HiWi Project/nullseq/nullseq.py", line 163, in
main(args.o, number=args.n, seqfile=args.seq,
File "/Volumes/LOH LAB/Orion/HiWi Project/nullseq/nullseq.py", line 90, in main
if NS.evaluate_possibility(AAUsage, gc, length, N):
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Volumes/LOH LAB/Orion/HiWi Project/NullSeq/NullSeq_Functions.py", line 479, in evaluate_possibility
(L, H) = get_maxmin_GC_count(AAfreq, n)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Volumes/LOH LAB/Orion/HiWi Project/NullSeq/NullSeq_Functions.py", line 446, in get_maxmin_GC_count
high += AAfreq[AA]maxGCDict[AA]/3
~~~~~~~~~^^^^
KeyError: ''
could someone point me towards the solution?
Thank You
The text was updated successfully, but these errors were encountered:
I am trying to generate random intervals but I get the following error:
python nullseq/nullseq.py -n 2315832 -l 22 --seq chr19_prdm9.fasta -o random_chr19_prdm9.fasta
Translation Table: 11
Operating Mode: Exisitng Sequence - Nucleotide
AAFreq :
I 0.1429
D 0.1429
T 0.2857
S 0.1429
E 0.1429
* 0.1429
GC content : 0.0
Length : 22
Number of sequence : 2315832
Traceback (most recent call last):
File "/Volumes/LOH LAB/Orion/HiWi Project/nullseq/nullseq.py", line 163, in
main(args.o, number=args.n, seqfile=args.seq,
File "/Volumes/LOH LAB/Orion/HiWi Project/nullseq/nullseq.py", line 90, in main
if NS.evaluate_possibility(AAUsage, gc, length, N):
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Volumes/LOH LAB/Orion/HiWi Project/NullSeq/NullSeq_Functions.py", line 479, in evaluate_possibility
(L, H) = get_maxmin_GC_count(AAfreq, n)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Volumes/LOH LAB/Orion/HiWi Project/NullSeq/NullSeq_Functions.py", line 446, in get_maxmin_GC_count
high += AAfreq[AA]maxGCDict[AA]/3
~~~~~~~~~^^^^
KeyError: ''
could someone point me towards the solution?
Thank You
The text was updated successfully, but these errors were encountered: