Job ID = 6367640 SRX = SRX3583351 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:32:35 prefetch.2.10.7: 1) Downloading 'SRR6494007'... 2020-06-15T23:32:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:38:59 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:38:59 prefetch.2.10.7: 1) 'SRR6494007' was downloaded successfully 2020-06-15T23:38:59 prefetch.2.10.7: 'SRR6494007' has 0 unresolved dependencies Read 33663924 spots for SRR6494007/SRR6494007.sra Written 33663924 spots for SRR6494007/SRR6494007.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: 00:11:54 33663924 reads; of these: 33663924 (100.00%) were unpaired; of these: 557756 (1.66%) aligned 0 times 27552587 (81.85%) aligned exactly 1 time 5553581 (16.50%) aligned >1 times 98.34% overall alignment rate Time searching: 00:11:54 Overall time: 00:11:54 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 4710625 / 33106168 = 0.1423 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 @ Tue, 16 Jun 2020 09:01:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 16 Jun 2020 09:01:29: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:01:29: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:01:34: 1000000 INFO @ Tue, 16 Jun 2020 09:01:39: 2000000 INFO @ Tue, 16 Jun 2020 09:01:44: 3000000 INFO @ Tue, 16 Jun 2020 09:01:49: 4000000 INFO @ Tue, 16 Jun 2020 09:01:54: 5000000 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 @ Tue, 16 Jun 2020 09:01:59: 6000000 INFO @ Tue, 16 Jun 2020 09:01:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 16 Jun 2020 09:01:59: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:01:59: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:02:04: 7000000 INFO @ Tue, 16 Jun 2020 09:02:06: 1000000 INFO @ Tue, 16 Jun 2020 09:02:09: 8000000 INFO @ Tue, 16 Jun 2020 09:02:12: 2000000 INFO @ Tue, 16 Jun 2020 09:02:14: 9000000 INFO @ Tue, 16 Jun 2020 09:02:19: 3000000 INFO @ Tue, 16 Jun 2020 09:02:19: 10000000 INFO @ Tue, 16 Jun 2020 09:02:24: 11000000 INFO @ Tue, 16 Jun 2020 09:02:25: 4000000 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 @ Tue, 16 Jun 2020 09:02:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 16 Jun 2020 09:02:29: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:02:29: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:02:30: 12000000 INFO @ Tue, 16 Jun 2020 09:02:32: 5000000 INFO @ Tue, 16 Jun 2020 09:02:35: 13000000 INFO @ Tue, 16 Jun 2020 09:02:35: 1000000 INFO @ Tue, 16 Jun 2020 09:02:38: 6000000 INFO @ Tue, 16 Jun 2020 09:02:40: 14000000 INFO @ Tue, 16 Jun 2020 09:02:42: 2000000 INFO @ Tue, 16 Jun 2020 09:02:44: 7000000 INFO @ Tue, 16 Jun 2020 09:02:45: 15000000 INFO @ Tue, 16 Jun 2020 09:02:48: 3000000 INFO @ Tue, 16 Jun 2020 09:02:50: 16000000 INFO @ Tue, 16 Jun 2020 09:02:51: 8000000 INFO @ Tue, 16 Jun 2020 09:02:54: 4000000 INFO @ Tue, 16 Jun 2020 09:02:56: 17000000 INFO @ Tue, 16 Jun 2020 09:02:57: 9000000 INFO @ Tue, 16 Jun 2020 09:03:00: 5000000 INFO @ Tue, 16 Jun 2020 09:03:01: 18000000 INFO @ Tue, 16 Jun 2020 09:03:03: 10000000 INFO @ Tue, 16 Jun 2020 09:03:06: 6000000 INFO @ Tue, 16 Jun 2020 09:03:06: 19000000 INFO @ Tue, 16 Jun 2020 09:03:09: 11000000 INFO @ Tue, 16 Jun 2020 09:03:11: 20000000 INFO @ Tue, 16 Jun 2020 09:03:12: 7000000 INFO @ Tue, 16 Jun 2020 09:03:16: 12000000 INFO @ Tue, 16 Jun 2020 09:03:17: 21000000 INFO @ Tue, 16 Jun 2020 09:03:18: 8000000 INFO @ Tue, 16 Jun 2020 09:03:22: 22000000 INFO @ Tue, 16 Jun 2020 09:03:22: 13000000 INFO @ Tue, 16 Jun 2020 09:03:24: 9000000 INFO @ Tue, 16 Jun 2020 09:03:27: 23000000 INFO @ Tue, 16 Jun 2020 09:03:29: 14000000 INFO @ Tue, 16 Jun 2020 09:03:30: 10000000 INFO @ Tue, 16 Jun 2020 09:03:32: 24000000 INFO @ Tue, 16 Jun 2020 09:03:35: 15000000 INFO @ Tue, 16 Jun 2020 09:03:36: 11000000 INFO @ Tue, 16 Jun 2020 09:03:38: 25000000 INFO @ Tue, 16 Jun 2020 09:03:42: 16000000 INFO @ Tue, 16 Jun 2020 09:03:42: 12000000 INFO @ Tue, 16 Jun 2020 09:03:43: 26000000 INFO @ Tue, 16 Jun 2020 09:03:48: 13000000 INFO @ Tue, 16 Jun 2020 09:03:48: 17000000 INFO @ Tue, 16 Jun 2020 09:03:48: 27000000 INFO @ Tue, 16 Jun 2020 09:03:54: 14000000 INFO @ Tue, 16 Jun 2020 09:03:54: 28000000 INFO @ Tue, 16 Jun 2020 09:03:54: 18000000 INFO @ Tue, 16 Jun 2020 09:03:56: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:03:56: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:03:56: #1 total tags in treatment: 28395543 INFO @ Tue, 16 Jun 2020 09:03:56: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:03:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 09:03:56: #1 tags after filtering in treatment: 28395543 INFO @ Tue, 16 Jun 2020 09:03:56: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:03:56: #1 finished! INFO @ Tue, 16 Jun 2020 09:03:56: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:03:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:03:58: #2 number of paired peaks: 74 WARNING @ Tue, 16 Jun 2020 09:03:58: Too few paired peaks (74) 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 @ Tue, 16 Jun 2020 09:03:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.05_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/ce11/SRX3583351/SRX3583351.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:04:00: 15000000 INFO @ Tue, 16 Jun 2020 09:04:01: 19000000 INFO @ Tue, 16 Jun 2020 09:04:06: 16000000 INFO @ Tue, 16 Jun 2020 09:04:07: 20000000 INFO @ Tue, 16 Jun 2020 09:04:12: 17000000 INFO @ Tue, 16 Jun 2020 09:04:14: 21000000 INFO @ Tue, 16 Jun 2020 09:04:18: 18000000 INFO @ Tue, 16 Jun 2020 09:04:20: 22000000 INFO @ Tue, 16 Jun 2020 09:04:24: 19000000 INFO @ Tue, 16 Jun 2020 09:04:26: 23000000 INFO @ Tue, 16 Jun 2020 09:04:30: 20000000 INFO @ Tue, 16 Jun 2020 09:04:33: 24000000 INFO @ Tue, 16 Jun 2020 09:04:36: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:04:39: 25000000 INFO @ Tue, 16 Jun 2020 09:04:42: 22000000 INFO @ Tue, 16 Jun 2020 09:04:45: 26000000 INFO @ Tue, 16 Jun 2020 09:04:47: 23000000 INFO @ Tue, 16 Jun 2020 09:04:51: 27000000 INFO @ Tue, 16 Jun 2020 09:04:53: 24000000 INFO @ Tue, 16 Jun 2020 09:04:58: 28000000 INFO @ Tue, 16 Jun 2020 09:04:59: 25000000 INFO @ Tue, 16 Jun 2020 09:05:01: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:05:01: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:05:01: #1 total tags in treatment: 28395543 INFO @ Tue, 16 Jun 2020 09:05:01: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:05:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 09:05:01: #1 tags after filtering in treatment: 28395543 INFO @ Tue, 16 Jun 2020 09:05:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:05:01: #1 finished! INFO @ Tue, 16 Jun 2020 09:05:01: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:05:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:05:03: #2 number of paired peaks: 74 WARNING @ Tue, 16 Jun 2020 09:05:03: Too few paired peaks (74) 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 @ Tue, 16 Jun 2020 09:05:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.10_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/ce11/SRX3583351/SRX3583351.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:05:05: 26000000 INFO @ Tue, 16 Jun 2020 09:05:11: 27000000 INFO @ Tue, 16 Jun 2020 09:05:17: 28000000 INFO @ Tue, 16 Jun 2020 09:05:19: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:05:19: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:05:19: #1 total tags in treatment: 28395543 INFO @ Tue, 16 Jun 2020 09:05:19: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:05:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 09:05:20: #1 tags after filtering in treatment: 28395543 INFO @ Tue, 16 Jun 2020 09:05:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:05:20: #1 finished! INFO @ Tue, 16 Jun 2020 09:05:20: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:05:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:05:22: #2 number of paired peaks: 74 WARNING @ Tue, 16 Jun 2020 09:05:22: Too few paired peaks (74) 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 @ Tue, 16 Jun 2020 09:05:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.20_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/ce11/SRX3583351/SRX3583351.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583351/SRX3583351.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。