PLEASE ANSWER THIS! Chromosemble aborting issue

[burbrink]

Hi Everyone,

I see that you have stopped answering any of the questions here for ~9 months. I am hoping you can do something here. Thanks in advance.

I have spent a lot of time trying to solve this problem but no luck. There is very little documentation about this function/program so I cannot seem to solve this myself.

When I run the following command, the run starts for many hours (5-15) and then aborts, but produces nothing other than "starting" in the error file:

./Chromosemble -t Thamnophis_elegans-GCA_009769535.1-unmasked.fa -q Pantherophis-obs.fa -n 25 -s 1 -o PANTH_Chromo_NEW

....
Potential targets: 49293
Downsize to 292
MAIN: Targets retrieved: 292
MAIN: STATUS: iteration, slaves_processed, new_matches, slave_to_match_relation, targets_needed, targets_collected
MAIN: STATUS: 112, 145, 161861, 1116.28, 292, 292, 2020/12/23 14:26:24
MAIN: starting iteration 113
WORKQUEUE: matches collected. FW: 59294 REV: 53738
MAIN: 113032 new matches collected
MAIN: Running the chaining step...
Matches before collapse: 9324374
Matches after collapse: 9305825
MAIN: running coverage tracker
MAIN: coverage tracker: +4125929 -1792009
MAIN: DynProg...
Chaining (inline)...
Filling out repeat lists...
Dynprog'ing...

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ERROR!!! See log file for more error messages. ABORTING!

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