Job ID = 7108182 SRX = SRX7960939 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 12907936 spots for SRR11359444/SRR11359444.sra Written 12907936 spots for SRR11359444/SRR11359444.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:08 12907936 reads; of these: 12907936 (100.00%) were unpaired; of these: 1685149 (13.06%) aligned 0 times 5887126 (45.61%) aligned exactly 1 time 5335661 (41.34%) aligned >1 times 86.94% overall alignment rate Time searching: 00:05:08 Overall time: 00:05:08 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 7161790 / 11222787 = 0.6381 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:40:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 13:40:38: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:40:38: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:40:47: 1000000 INFO @ Wed, 22 Jul 2020 13:40:56: 2000000 INFO @ Wed, 22 Jul 2020 13:41:04: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:41:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 13:41:08: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:41:08: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:41:14: 4000000 INFO @ Wed, 22 Jul 2020 13:41:14: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 13:41:14: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 13:41:14: #1 total tags in treatment: 4060997 INFO @ Wed, 22 Jul 2020 13:41:14: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:41:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:41:14: #1 tags after filtering in treatment: 4060997 INFO @ Wed, 22 Jul 2020 13:41:14: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 13:41:14: #1 finished! INFO @ Wed, 22 Jul 2020 13:41:14: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:41:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:41:14: #2 number of paired peaks: 42 WARNING @ Wed, 22 Jul 2020 13:41:14: Too few paired peaks (42) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 13:41:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:41:18: 1000000 INFO @ Wed, 22 Jul 2020 13:41:26: 2000000 INFO @ Wed, 22 Jul 2020 13:41:35: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:41:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 13:41:38: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:41:38: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:41:45: 4000000 INFO @ Wed, 22 Jul 2020 13:41:46: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 13:41:46: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 13:41:46: #1 total tags in treatment: 4060997 INFO @ Wed, 22 Jul 2020 13:41:46: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:41:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:41:46: #1 tags after filtering in treatment: 4060997 INFO @ Wed, 22 Jul 2020 13:41:46: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 13:41:46: #1 finished! INFO @ Wed, 22 Jul 2020 13:41:46: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:41:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:41:46: #2 number of paired peaks: 42 WARNING @ Wed, 22 Jul 2020 13:41:46: Too few paired peaks (42) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 13:41:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:41:49: 1000000 INFO @ Wed, 22 Jul 2020 13:41:58: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:42:07: 3000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:42:16: 4000000 INFO @ Wed, 22 Jul 2020 13:42:17: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 13:42:17: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 13:42:17: #1 total tags in treatment: 4060997 INFO @ Wed, 22 Jul 2020 13:42:17: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:42:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:42:17: #1 tags after filtering in treatment: 4060997 INFO @ Wed, 22 Jul 2020 13:42:17: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 13:42:17: #1 finished! INFO @ Wed, 22 Jul 2020 13:42:17: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:42:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:42:17: #2 number of paired peaks: 42 WARNING @ Wed, 22 Jul 2020 13:42:17: Too few paired peaks (42) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 13:42:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7960939/SRX7960939.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling