zhengchangsulab / ProSampler

ultra-fast motif-finder in very large sequence sets
GNU General Public License v3.0
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No ouput files? Final line says "killed" #3

Open c2b2pss opened 2 years ago

c2b2pss commented 2 years ago

Hi,

I do not see any output files. It looks like it ran but in the end it says "killed"......

./ProSampler.unix -i /home/premsubramaniam/Desktop/TFEA_output/LNCAP_WT01_peaks.fasta -o out_
Finished parsing input parameters to the program.
Finished loading FASTA file /home/user/Desktop/TFEA_output/LNCAP_WT01_peaks.fasta into sequence variable.
There're altogether 293893 FASTA sequences inputted into this program.
k-mer counting has been completed.
Finished claculating the k-mer frequencies.
Finished generating background sequences.
Finished getting rid of the unknown letters in FASTA file.
Finished counting the nucleotide frequencies of the input FASTA file.
Finished counting 8-mer occurrence numbers and sites.
Finished counting 8-mer occurrence numbers and sites.
there are altogether 8672 significant 8-mers left.
there are altogether 2670 sub-significant 8-mers left.
Finished sorting the significant 8-mers based on z-scores.
Finished sorting the significant 8-mers based on z-scores.
Finished calculating the profile matrices by the flanking segments beside the 8-mers.
Finished constructing PSMs.
There are altogether 8672 PSMs constructed.
Finished computing the matrices information of each PSM.
Finished cumputing the coverage for all PSMs.
Finished computing the z-scores for all PSMs
Finished computing the consensus strings for each PSM.
Finished sorting the PSMs in PSM set.
Finished kicking out the trivial PSMs.
There're 8672 PSMs left.
Finished building PSM Adjacency Graph.
There're altogether 8672 nodes in this graph.
Begin Gibbs Sampling ...
Finished Gibbs Sampling.
We have obtained altogether 1968 preliminary motifs.
Finished constructing wild card tables.
Killed
zhengchangsulab commented 1 year ago

It appeared your file was not a transcription factor ChIP-seq dataset.