I've launched TT-Mars on HG002 assemblies (with the HG002 files downloaded from the README), and it hasn't yet finished after 1 week. Is this expected? How long should the program typically take? The input VCF has ~14K SVs (only DEL/INV/DUPs). It also hasn't written anything to file since August 8. The last file that got created is "ttmars_chrx_res.txt". The output from the tool is this (hasn't changed for 1 week):
0
1000
3000
….
9000
10000
12000
14000
0
1000
3000
…
9000
10000
12000
14000
This is the command I used (called from the TT-Mars repo):
python ttmars.py
Hi Quentin,
I've launched TT-Mars on HG002 assemblies (with the HG002 files downloaded from the README), and it hasn't yet finished after 1 week. Is this expected? How long should the program typically take? The input VCF has ~14K SVs (only DEL/INV/DUPs). It also hasn't written anything to file since August 8. The last file that got created is "ttmars_chrx_res.txt". The output from the tool is this (hasn't changed for 1 week): 0 1000 3000 …. 9000 10000 12000 14000 0 1000 3000 … 9000 10000 12000 14000
This is the command I used (called from the TT-Mars repo): python ttmars.py
Thanks! V