Job ID = 6367190 SRX = SRX2973399 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:18:31 prefetch.2.10.7: 1) Downloading 'SRR5786970'... 2020-06-15T23:18:31 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:23:13 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:23:13 prefetch.2.10.7: 1) 'SRR5786970' was downloaded successfully 2020-06-15T23:23:13 prefetch.2.10.7: 'SRR5786970' has 0 unresolved dependencies Read 70079354 spots for SRR5786970/SRR5786970.sra Written 70079354 spots for SRR5786970/SRR5786970.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: 00:21:25 70079354 reads; of these: 70079354 (100.00%) were unpaired; of these: 11798792 (16.84%) aligned 0 times 48415399 (69.09%) aligned exactly 1 time 9865163 (14.08%) aligned >1 times 83.16% overall alignment rate Time searching: 00:21:25 Overall time: 00:21:25 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 24 files... [bam_rmdupse_core] 20370500 / 58280562 = 0.3495 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 09:01:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.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 09:01:06: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:01:06: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:01:12: 1000000 INFO @ Tue, 16 Jun 2020 09:01:19: 2000000 INFO @ Tue, 16 Jun 2020 09:01:26: 3000000 INFO @ Tue, 16 Jun 2020 09:01:32: 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 09:01:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.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 09:01:36: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:01:36: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:01:39: 5000000 INFO @ Tue, 16 Jun 2020 09:01:43: 1000000 INFO @ Tue, 16 Jun 2020 09:01:47: 6000000 INFO @ Tue, 16 Jun 2020 09:01:50: 2000000 INFO @ Tue, 16 Jun 2020 09:01:54: 7000000 INFO @ Tue, 16 Jun 2020 09:01:57: 3000000 INFO @ Tue, 16 Jun 2020 09:02:01: 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 09:02:04: 4000000 INFO @ Tue, 16 Jun 2020 09:02:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.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 09:02:06: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:02:06: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:02:08: 9000000 INFO @ Tue, 16 Jun 2020 09:02:11: 5000000 INFO @ Tue, 16 Jun 2020 09:02:13: 1000000 INFO @ Tue, 16 Jun 2020 09:02:15: 10000000 INFO @ Tue, 16 Jun 2020 09:02:18: 6000000 INFO @ Tue, 16 Jun 2020 09:02:20: 2000000 INFO @ Tue, 16 Jun 2020 09:02:22: 11000000 INFO @ Tue, 16 Jun 2020 09:02:25: 7000000 INFO @ Tue, 16 Jun 2020 09:02:27: 3000000 INFO @ Tue, 16 Jun 2020 09:02:29: 12000000 INFO @ Tue, 16 Jun 2020 09:02:32: 8000000 INFO @ Tue, 16 Jun 2020 09:02:34: 4000000 INFO @ Tue, 16 Jun 2020 09:02:36: 13000000 INFO @ Tue, 16 Jun 2020 09:02:39: 9000000 INFO @ Tue, 16 Jun 2020 09:02:42: 5000000 INFO @ Tue, 16 Jun 2020 09:02:43: 14000000 INFO @ Tue, 16 Jun 2020 09:02:47: 10000000 INFO @ Tue, 16 Jun 2020 09:02:49: 6000000 INFO @ Tue, 16 Jun 2020 09:02:50: 15000000 INFO @ Tue, 16 Jun 2020 09:02:54: 11000000 INFO @ Tue, 16 Jun 2020 09:02:56: 7000000 INFO @ Tue, 16 Jun 2020 09:02:57: 16000000 INFO @ Tue, 16 Jun 2020 09:03:01: 12000000 INFO @ Tue, 16 Jun 2020 09:03:03: 8000000 INFO @ Tue, 16 Jun 2020 09:03:04: 17000000 INFO @ Tue, 16 Jun 2020 09:03:08: 13000000 INFO @ Tue, 16 Jun 2020 09:03:10: 9000000 INFO @ Tue, 16 Jun 2020 09:03:11: 18000000 INFO @ Tue, 16 Jun 2020 09:03:15: 14000000 INFO @ Tue, 16 Jun 2020 09:03:17: 10000000 INFO @ Tue, 16 Jun 2020 09:03:18: 19000000 INFO @ Tue, 16 Jun 2020 09:03:22: 15000000 INFO @ Tue, 16 Jun 2020 09:03:24: 11000000 INFO @ Tue, 16 Jun 2020 09:03:26: 20000000 INFO @ Tue, 16 Jun 2020 09:03:28: 16000000 INFO @ Tue, 16 Jun 2020 09:03:31: 12000000 INFO @ Tue, 16 Jun 2020 09:03:33: 21000000 INFO @ Tue, 16 Jun 2020 09:03:35: 17000000 INFO @ Tue, 16 Jun 2020 09:03:38: 13000000 INFO @ Tue, 16 Jun 2020 09:03:40: 22000000 INFO @ Tue, 16 Jun 2020 09:03:42: 18000000 INFO @ Tue, 16 Jun 2020 09:03:45: 14000000 INFO @ Tue, 16 Jun 2020 09:03:47: 23000000 INFO @ Tue, 16 Jun 2020 09:03:49: 19000000 INFO @ Tue, 16 Jun 2020 09:03:52: 15000000 INFO @ Tue, 16 Jun 2020 09:03:54: 24000000 INFO @ Tue, 16 Jun 2020 09:03:56: 20000000 INFO @ Tue, 16 Jun 2020 09:03:58: 16000000 INFO @ Tue, 16 Jun 2020 09:04:01: 25000000 INFO @ Tue, 16 Jun 2020 09:04:02: 21000000 INFO @ Tue, 16 Jun 2020 09:04:05: 17000000 INFO @ Tue, 16 Jun 2020 09:04:08: 26000000 INFO @ Tue, 16 Jun 2020 09:04:09: 22000000 INFO @ Tue, 16 Jun 2020 09:04:12: 18000000 INFO @ Tue, 16 Jun 2020 09:04:15: 27000000 INFO @ Tue, 16 Jun 2020 09:04:16: 23000000 INFO @ Tue, 16 Jun 2020 09:04:19: 19000000 INFO @ Tue, 16 Jun 2020 09:04:22: 28000000 INFO @ Tue, 16 Jun 2020 09:04:23: 24000000 INFO @ Tue, 16 Jun 2020 09:04:26: 20000000 INFO @ Tue, 16 Jun 2020 09:04:29: 29000000 INFO @ Tue, 16 Jun 2020 09:04:30: 25000000 INFO @ Tue, 16 Jun 2020 09:04:33: 21000000 INFO @ Tue, 16 Jun 2020 09:04:36: 30000000 INFO @ Tue, 16 Jun 2020 09:04:37: 26000000 INFO @ Tue, 16 Jun 2020 09:04:40: 22000000 INFO @ Tue, 16 Jun 2020 09:04:43: 31000000 INFO @ Tue, 16 Jun 2020 09:04:43: 27000000 INFO @ Tue, 16 Jun 2020 09:04:47: 23000000 INFO @ Tue, 16 Jun 2020 09:04:50: 32000000 INFO @ Tue, 16 Jun 2020 09:04:50: 28000000 INFO @ Tue, 16 Jun 2020 09:04:54: 24000000 INFO @ Tue, 16 Jun 2020 09:04:57: 29000000 INFO @ Tue, 16 Jun 2020 09:04:57: 33000000 INFO @ Tue, 16 Jun 2020 09:05:01: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:05:04: 30000000 INFO @ Tue, 16 Jun 2020 09:05:04: 34000000 INFO @ Tue, 16 Jun 2020 09:05:08: 26000000 INFO @ Tue, 16 Jun 2020 09:05:11: 31000000 INFO @ Tue, 16 Jun 2020 09:05:12: 35000000 INFO @ Tue, 16 Jun 2020 09:05:14: 27000000 INFO @ Tue, 16 Jun 2020 09:05:18: 32000000 INFO @ Tue, 16 Jun 2020 09:05:19: 36000000 INFO @ Tue, 16 Jun 2020 09:05:21: 28000000 INFO @ Tue, 16 Jun 2020 09:05:25: 33000000 INFO @ Tue, 16 Jun 2020 09:05:25: 37000000 INFO @ Tue, 16 Jun 2020 09:05:28: 29000000 INFO @ Tue, 16 Jun 2020 09:05:32: 34000000 INFO @ Tue, 16 Jun 2020 09:05:32: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:05:32: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:05:32: #1 total tags in treatment: 37910062 INFO @ Tue, 16 Jun 2020 09:05:32: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:05:32: #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 09:05:33: #1 tags after filtering in treatment: 37910062 INFO @ Tue, 16 Jun 2020 09:05:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:05:33: #1 finished! INFO @ Tue, 16 Jun 2020 09:05:33: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:05:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:05:35: 30000000 INFO @ Tue, 16 Jun 2020 09:05:35: #2 number of paired peaks: 0 WARNING @ Tue, 16 Jun 2020 09:05:35: Too few paired peaks (0) 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 09:05:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:05:39: 35000000 INFO @ Tue, 16 Jun 2020 09:05:41: 31000000 INFO @ Tue, 16 Jun 2020 09:05:45: 36000000 INFO @ Tue, 16 Jun 2020 09:05:48: 32000000 INFO @ Tue, 16 Jun 2020 09:05:52: 37000000 INFO @ Tue, 16 Jun 2020 09:05:55: 33000000 INFO @ Tue, 16 Jun 2020 09:05:58: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:05:58: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:05:58: #1 total tags in treatment: 37910062 INFO @ Tue, 16 Jun 2020 09:05:58: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:05:58: #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 09:05:59: #1 tags after filtering in treatment: 37910062 INFO @ Tue, 16 Jun 2020 09:05:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:05:59: #1 finished! INFO @ Tue, 16 Jun 2020 09:05:59: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:05:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:06:01: #2 number of paired peaks: 0 WARNING @ Tue, 16 Jun 2020 09:06:01: Too few paired peaks (0) 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 09:06:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:06:02: 34000000 INFO @ Tue, 16 Jun 2020 09:06:08: 35000000 INFO @ Tue, 16 Jun 2020 09:06:15: 36000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 09:06:21: 37000000 INFO @ Tue, 16 Jun 2020 09:06:27: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:06:27: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:06:27: #1 total tags in treatment: 37910062 INFO @ Tue, 16 Jun 2020 09:06:27: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:06:27: #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 09:06:27: #1 tags after filtering in treatment: 37910062 INFO @ Tue, 16 Jun 2020 09:06:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:06:27: #1 finished! INFO @ Tue, 16 Jun 2020 09:06:27: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:06:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:06:30: #2 number of paired peaks: 0 WARNING @ Tue, 16 Jun 2020 09:06:30: Too few paired peaks (0) 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 09:06:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.20_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/SRX2973399/SRX2973399.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2973399/SRX2973399.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling