Job ID = 6367249 SRX = SRX3104612 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:34:50 prefetch.2.10.7: 1) Downloading 'SRR5946217'... 2020-06-15T23:34:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:39:58 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:39:58 prefetch.2.10.7: 1) 'SRR5946217' was downloaded successfully 2020-06-15T23:39:58 prefetch.2.10.7: 'SRR5946217' has 0 unresolved dependencies Read 40921740 spots for SRR5946217/SRR5946217.sra Written 40921740 spots for SRR5946217/SRR5946217.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: 00:09:15 40921740 reads; of these: 40921740 (100.00%) were unpaired; of these: 735528 (1.80%) aligned 0 times 33517644 (81.91%) aligned exactly 1 time 6668568 (16.30%) aligned >1 times 98.20% overall alignment rate Time searching: 00:09:15 Overall time: 00:09:15 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 20 files... [bam_rmdupse_core] 5672679 / 40186212 = 0.1412 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 09:00:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.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 09:00:13: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:00:13: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:00:20: 1000000 INFO @ Tue, 16 Jun 2020 09:00:27: 2000000 INFO @ Tue, 16 Jun 2020 09:00:34: 3000000 INFO @ Tue, 16 Jun 2020 09:00:41: 4000000 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 09:00:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.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 09:00:43: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:00:43: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:00:47: 5000000 INFO @ Tue, 16 Jun 2020 09:00:49: 1000000 INFO @ Tue, 16 Jun 2020 09:00:54: 2000000 INFO @ Tue, 16 Jun 2020 09:00:54: 6000000 INFO @ Tue, 16 Jun 2020 09:01:00: 3000000 INFO @ Tue, 16 Jun 2020 09:01:01: 7000000 INFO @ Tue, 16 Jun 2020 09:01:06: 4000000 INFO @ Tue, 16 Jun 2020 09:01:08: 8000000 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 09:01:11: 5000000 INFO @ Tue, 16 Jun 2020 09:01:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.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 09:01:13: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:01:13: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:01:14: 9000000 INFO @ Tue, 16 Jun 2020 09:01:17: 6000000 INFO @ Tue, 16 Jun 2020 09:01:19: 1000000 INFO @ Tue, 16 Jun 2020 09:01:21: 10000000 INFO @ Tue, 16 Jun 2020 09:01:24: 7000000 INFO @ Tue, 16 Jun 2020 09:01:26: 2000000 INFO @ Tue, 16 Jun 2020 09:01:27: 11000000 INFO @ Tue, 16 Jun 2020 09:01:30: 8000000 INFO @ Tue, 16 Jun 2020 09:01:32: 3000000 INFO @ Tue, 16 Jun 2020 09:01:34: 12000000 INFO @ Tue, 16 Jun 2020 09:01:36: 9000000 INFO @ Tue, 16 Jun 2020 09:01:38: 4000000 INFO @ Tue, 16 Jun 2020 09:01:40: 13000000 INFO @ Tue, 16 Jun 2020 09:01:42: 10000000 INFO @ Tue, 16 Jun 2020 09:01:44: 5000000 INFO @ Tue, 16 Jun 2020 09:01:46: 14000000 INFO @ Tue, 16 Jun 2020 09:01:47: 11000000 INFO @ Tue, 16 Jun 2020 09:01:50: 6000000 INFO @ Tue, 16 Jun 2020 09:01:53: 15000000 INFO @ Tue, 16 Jun 2020 09:01:54: 12000000 INFO @ Tue, 16 Jun 2020 09:01:56: 7000000 INFO @ Tue, 16 Jun 2020 09:01:59: 16000000 INFO @ Tue, 16 Jun 2020 09:01:59: 13000000 INFO @ Tue, 16 Jun 2020 09:02:02: 8000000 INFO @ Tue, 16 Jun 2020 09:02:05: 14000000 INFO @ Tue, 16 Jun 2020 09:02:06: 17000000 INFO @ Tue, 16 Jun 2020 09:02:08: 9000000 INFO @ Tue, 16 Jun 2020 09:02:12: 15000000 INFO @ Tue, 16 Jun 2020 09:02:13: 18000000 INFO @ Tue, 16 Jun 2020 09:02:14: 10000000 INFO @ Tue, 16 Jun 2020 09:02:18: 16000000 INFO @ Tue, 16 Jun 2020 09:02:19: 19000000 INFO @ Tue, 16 Jun 2020 09:02:20: 11000000 INFO @ Tue, 16 Jun 2020 09:02:24: 17000000 INFO @ Tue, 16 Jun 2020 09:02:26: 20000000 INFO @ Tue, 16 Jun 2020 09:02:26: 12000000 INFO @ Tue, 16 Jun 2020 09:02:30: 18000000 INFO @ Tue, 16 Jun 2020 09:02:32: 13000000 INFO @ Tue, 16 Jun 2020 09:02:32: 21000000 INFO @ Tue, 16 Jun 2020 09:02:36: 19000000 INFO @ Tue, 16 Jun 2020 09:02:38: 14000000 INFO @ Tue, 16 Jun 2020 09:02:39: 22000000 INFO @ Tue, 16 Jun 2020 09:02:41: 20000000 INFO @ Tue, 16 Jun 2020 09:02:44: 15000000 INFO @ Tue, 16 Jun 2020 09:02:45: 23000000 INFO @ Tue, 16 Jun 2020 09:02:47: 21000000 INFO @ Tue, 16 Jun 2020 09:02:49: 16000000 INFO @ Tue, 16 Jun 2020 09:02:51: 24000000 INFO @ Tue, 16 Jun 2020 09:02:53: 22000000 INFO @ Tue, 16 Jun 2020 09:02:55: 17000000 INFO @ Tue, 16 Jun 2020 09:02:58: 25000000 INFO @ Tue, 16 Jun 2020 09:02:59: 23000000 INFO @ Tue, 16 Jun 2020 09:03:01: 18000000 INFO @ Tue, 16 Jun 2020 09:03:04: 26000000 INFO @ Tue, 16 Jun 2020 09:03:04: 24000000 INFO @ Tue, 16 Jun 2020 09:03:07: 19000000 INFO @ Tue, 16 Jun 2020 09:03:10: 25000000 INFO @ Tue, 16 Jun 2020 09:03:11: 27000000 INFO @ Tue, 16 Jun 2020 09:03:13: 20000000 INFO @ Tue, 16 Jun 2020 09:03:16: 26000000 INFO @ Tue, 16 Jun 2020 09:03:17: 28000000 INFO @ Tue, 16 Jun 2020 09:03:19: 21000000 INFO @ Tue, 16 Jun 2020 09:03:21: 27000000 INFO @ Tue, 16 Jun 2020 09:03:23: 29000000 INFO @ Tue, 16 Jun 2020 09:03:25: 22000000 INFO @ Tue, 16 Jun 2020 09:03:27: 28000000 INFO @ Tue, 16 Jun 2020 09:03:30: 30000000 INFO @ Tue, 16 Jun 2020 09:03:30: 23000000 INFO @ Tue, 16 Jun 2020 09:03:33: 29000000 INFO @ Tue, 16 Jun 2020 09:03:36: 31000000 INFO @ Tue, 16 Jun 2020 09:03:36: 24000000 INFO @ Tue, 16 Jun 2020 09:03:39: 30000000 INFO @ Tue, 16 Jun 2020 09:03:41: 32000000 INFO @ Tue, 16 Jun 2020 09:03:43: 25000000 INFO @ Tue, 16 Jun 2020 09:03:45: 31000000 INFO @ Tue, 16 Jun 2020 09:03:48: 33000000 INFO @ Tue, 16 Jun 2020 09:03:48: 26000000 INFO @ Tue, 16 Jun 2020 09:03:51: 32000000 INFO @ Tue, 16 Jun 2020 09:03:54: 34000000 INFO @ Tue, 16 Jun 2020 09:03:54: 27000000 INFO @ Tue, 16 Jun 2020 09:03:57: 33000000 INFO @ Tue, 16 Jun 2020 09:03:58: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 09:03:58: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 09:03:58: #1 total tags in treatment: 34513533 INFO @ Tue, 16 Jun 2020 09:03:58: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:03:58: #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 09:03:58: #1 tags after filtering in treatment: 34513533 INFO @ Tue, 16 Jun 2020 09:03:58: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:03:58: #1 finished! INFO @ Tue, 16 Jun 2020 09:03:58: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:03:58: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:04:00: 28000000 INFO @ Tue, 16 Jun 2020 09:04:00: #2 number of paired peaks: 37 WARNING @ Tue, 16 Jun 2020 09:04:00: Too few paired peaks (37) 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 09:04:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.05_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/SRX3104612/SRX3104612.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:04:02: 34000000 INFO @ Tue, 16 Jun 2020 09:04:05: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 09:04:05: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 09:04:05: #1 total tags in treatment: 34513533 INFO @ Tue, 16 Jun 2020 09:04:05: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:04:05: #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 09:04:06: 29000000 INFO @ Tue, 16 Jun 2020 09:04:06: #1 tags after filtering in treatment: 34513533 INFO @ Tue, 16 Jun 2020 09:04:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:04:06: #1 finished! INFO @ Tue, 16 Jun 2020 09:04:06: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:04:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:04:08: #2 number of paired peaks: 37 WARNING @ Tue, 16 Jun 2020 09:04:08: Too few paired peaks (37) 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 09:04:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.10_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/SRX3104612/SRX3104612.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:04:11: 30000000 INFO @ Tue, 16 Jun 2020 09:04:16: 31000000 INFO @ Tue, 16 Jun 2020 09:04:22: 32000000 INFO @ Tue, 16 Jun 2020 09:04:27: 33000000 INFO @ Tue, 16 Jun 2020 09:04:32: 34000000 INFO @ Tue, 16 Jun 2020 09:04:35: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 09:04:35: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 09:04:35: #1 total tags in treatment: 34513533 INFO @ Tue, 16 Jun 2020 09:04:35: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:04:35: #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 09:04:36: #1 tags after filtering in treatment: 34513533 INFO @ Tue, 16 Jun 2020 09:04:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:04:36: #1 finished! INFO @ Tue, 16 Jun 2020 09:04:36: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:04:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:04:38: #2 number of paired peaks: 37 WARNING @ Tue, 16 Jun 2020 09:04:38: Too few paired peaks (37) 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 09:04:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.20_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/SRX3104612/SRX3104612.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3104612/SRX3104612.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。