Job ID = 6527763 SRX = SRX2692975 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:14:34 prefetch.2.10.7: 1) Downloading 'SRR5398174'... 2020-06-29T13:14:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:22:02 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:22:02 prefetch.2.10.7: 1) 'SRR5398174' was downloaded successfully 2020-06-29T13:22:02 prefetch.2.10.7: 'SRR5398174' has 0 unresolved dependencies Read 77581967 spots for SRR5398174/SRR5398174.sra Written 77581967 spots for SRR5398174/SRR5398174.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: 00:49:08 77581967 reads; of these: 77581967 (100.00%) were unpaired; of these: 10928825 (14.09%) aligned 0 times 34812185 (44.87%) aligned exactly 1 time 31840957 (41.04%) aligned >1 times 85.91% overall alignment rate Time searching: 00:49:08 Overall time: 00:49:08 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 28 files... [bam_rmdupse_core] 27149447 / 66653142 = 0.4073 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 @ Mon, 29 Jun 2020 23:50:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 23:50:56: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:50:56: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:51:03: 1000000 INFO @ Mon, 29 Jun 2020 23:51:11: 2000000 INFO @ Mon, 29 Jun 2020 23:51:18: 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 @ Mon, 29 Jun 2020 23:51:25: 4000000 INFO @ Mon, 29 Jun 2020 23:51:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 23:51:26: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:51:26: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:51:33: 5000000 INFO @ Mon, 29 Jun 2020 23:51:34: 1000000 INFO @ Mon, 29 Jun 2020 23:51:41: 6000000 INFO @ Mon, 29 Jun 2020 23:51:42: 2000000 INFO @ Mon, 29 Jun 2020 23:51:49: 7000000 INFO @ Mon, 29 Jun 2020 23:51:51: 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 @ Mon, 29 Jun 2020 23:51:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 23:51:56: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:51:56: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:51:57: 8000000 INFO @ Mon, 29 Jun 2020 23:51:59: 4000000 INFO @ Mon, 29 Jun 2020 23:52:04: 1000000 INFO @ Mon, 29 Jun 2020 23:52:05: 9000000 INFO @ Mon, 29 Jun 2020 23:52:07: 5000000 INFO @ Mon, 29 Jun 2020 23:52:11: 2000000 INFO @ Mon, 29 Jun 2020 23:52:13: 10000000 INFO @ Mon, 29 Jun 2020 23:52:15: 6000000 INFO @ Mon, 29 Jun 2020 23:52:18: 3000000 INFO @ Mon, 29 Jun 2020 23:52:21: 11000000 INFO @ Mon, 29 Jun 2020 23:52:23: 7000000 INFO @ Mon, 29 Jun 2020 23:52:26: 4000000 INFO @ Mon, 29 Jun 2020 23:52:29: 12000000 INFO @ Mon, 29 Jun 2020 23:52:31: 8000000 INFO @ Mon, 29 Jun 2020 23:52:33: 5000000 INFO @ Mon, 29 Jun 2020 23:52:37: 13000000 INFO @ Mon, 29 Jun 2020 23:52:39: 9000000 INFO @ Mon, 29 Jun 2020 23:52:41: 6000000 INFO @ Mon, 29 Jun 2020 23:52:45: 14000000 INFO @ Mon, 29 Jun 2020 23:52:47: 10000000 INFO @ Mon, 29 Jun 2020 23:52:48: 7000000 INFO @ Mon, 29 Jun 2020 23:52:53: 15000000 INFO @ Mon, 29 Jun 2020 23:52:55: 11000000 INFO @ Mon, 29 Jun 2020 23:52:55: 8000000 INFO @ Mon, 29 Jun 2020 23:53:01: 16000000 INFO @ Mon, 29 Jun 2020 23:53:03: 9000000 INFO @ Mon, 29 Jun 2020 23:53:03: 12000000 INFO @ Mon, 29 Jun 2020 23:53:09: 17000000 INFO @ Mon, 29 Jun 2020 23:53:10: 10000000 INFO @ Mon, 29 Jun 2020 23:53:11: 13000000 INFO @ Mon, 29 Jun 2020 23:53:17: 11000000 INFO @ Mon, 29 Jun 2020 23:53:17: 18000000 INFO @ Mon, 29 Jun 2020 23:53:19: 14000000 INFO @ Mon, 29 Jun 2020 23:53:25: 12000000 INFO @ Mon, 29 Jun 2020 23:53:25: 19000000 INFO @ Mon, 29 Jun 2020 23:53:27: 15000000 INFO @ Mon, 29 Jun 2020 23:53:32: 13000000 INFO @ Mon, 29 Jun 2020 23:53:33: 20000000 INFO @ Mon, 29 Jun 2020 23:53:35: 16000000 INFO @ Mon, 29 Jun 2020 23:53:39: 14000000 INFO @ Mon, 29 Jun 2020 23:53:41: 21000000 INFO @ Mon, 29 Jun 2020 23:53:43: 17000000 INFO @ Mon, 29 Jun 2020 23:53:46: 15000000 INFO @ Mon, 29 Jun 2020 23:53:50: 22000000 INFO @ Mon, 29 Jun 2020 23:53:51: 18000000 INFO @ Mon, 29 Jun 2020 23:53:54: 16000000 INFO @ Mon, 29 Jun 2020 23:53:58: 23000000 INFO @ Mon, 29 Jun 2020 23:53:59: 19000000 INFO @ Mon, 29 Jun 2020 23:54:01: 17000000 INFO @ Mon, 29 Jun 2020 23:54:06: 24000000 INFO @ Mon, 29 Jun 2020 23:54:07: 20000000 INFO @ Mon, 29 Jun 2020 23:54:09: 18000000 INFO @ Mon, 29 Jun 2020 23:54:15: 25000000 INFO @ Mon, 29 Jun 2020 23:54:15: 21000000 INFO @ Mon, 29 Jun 2020 23:54:16: 19000000 INFO @ Mon, 29 Jun 2020 23:54:23: 26000000 INFO @ Mon, 29 Jun 2020 23:54:24: 20000000 INFO @ Mon, 29 Jun 2020 23:54:24: 22000000 INFO @ Mon, 29 Jun 2020 23:54:31: 21000000 INFO @ Mon, 29 Jun 2020 23:54:31: 27000000 INFO @ Mon, 29 Jun 2020 23:54:32: 23000000 INFO @ Mon, 29 Jun 2020 23:54:39: 22000000 INFO @ Mon, 29 Jun 2020 23:54:40: 28000000 INFO @ Mon, 29 Jun 2020 23:54:40: 24000000 INFO @ Mon, 29 Jun 2020 23:54:46: 23000000 INFO @ Mon, 29 Jun 2020 23:54:48: 29000000 INFO @ Mon, 29 Jun 2020 23:54:49: 25000000 INFO @ Mon, 29 Jun 2020 23:54:54: 24000000 INFO @ Mon, 29 Jun 2020 23:54:56: 30000000 INFO @ Mon, 29 Jun 2020 23:54:57: 26000000 INFO @ Mon, 29 Jun 2020 23:55:01: 25000000 INFO @ Mon, 29 Jun 2020 23:55:05: 31000000 INFO @ Mon, 29 Jun 2020 23:55:06: 27000000 INFO @ Mon, 29 Jun 2020 23:55:09: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:55:13: 32000000 INFO @ Mon, 29 Jun 2020 23:55:14: 28000000 INFO @ Mon, 29 Jun 2020 23:55:16: 27000000 INFO @ Mon, 29 Jun 2020 23:55:22: 33000000 INFO @ Mon, 29 Jun 2020 23:55:22: 29000000 INFO @ Mon, 29 Jun 2020 23:55:24: 28000000 INFO @ Mon, 29 Jun 2020 23:55:30: 34000000 INFO @ Mon, 29 Jun 2020 23:55:31: 30000000 INFO @ Mon, 29 Jun 2020 23:55:31: 29000000 INFO @ Mon, 29 Jun 2020 23:55:38: 30000000 INFO @ Mon, 29 Jun 2020 23:55:39: 35000000 INFO @ Mon, 29 Jun 2020 23:55:39: 31000000 INFO @ Mon, 29 Jun 2020 23:55:46: 31000000 INFO @ Mon, 29 Jun 2020 23:55:47: 36000000 INFO @ Mon, 29 Jun 2020 23:55:47: 32000000 INFO @ Mon, 29 Jun 2020 23:55:53: 32000000 INFO @ Mon, 29 Jun 2020 23:55:56: 37000000 INFO @ Mon, 29 Jun 2020 23:55:56: 33000000 INFO @ Mon, 29 Jun 2020 23:56:01: 33000000 INFO @ Mon, 29 Jun 2020 23:56:04: 38000000 INFO @ Mon, 29 Jun 2020 23:56:04: 34000000 INFO @ Mon, 29 Jun 2020 23:56:09: 34000000 INFO @ Mon, 29 Jun 2020 23:56:13: 39000000 INFO @ Mon, 29 Jun 2020 23:56:13: 35000000 INFO @ Mon, 29 Jun 2020 23:56:16: 35000000 INFO @ Mon, 29 Jun 2020 23:56:17: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 23:56:17: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 23:56:17: #1 total tags in treatment: 39503695 INFO @ Mon, 29 Jun 2020 23:56:17: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:56:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:56:18: #1 tags after filtering in treatment: 39503695 INFO @ Mon, 29 Jun 2020 23:56:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:56:18: #1 finished! INFO @ Mon, 29 Jun 2020 23:56:18: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:56:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:56:20: #2 number of paired peaks: 42 WARNING @ Mon, 29 Jun 2020 23:56:20: 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 @ Mon, 29 Jun 2020 23:56:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.05_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/dm3/SRX2692975/SRX2692975.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:56:22: 36000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:56:24: 36000000 INFO @ Mon, 29 Jun 2020 23:56:30: 37000000 INFO @ Mon, 29 Jun 2020 23:56:32: 37000000 INFO @ Mon, 29 Jun 2020 23:56:39: 38000000 INFO @ Mon, 29 Jun 2020 23:56:40: 38000000 INFO @ Mon, 29 Jun 2020 23:56:47: 39000000 INFO @ Mon, 29 Jun 2020 23:56:48: 39000000 INFO @ Mon, 29 Jun 2020 23:56:51: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 23:56:51: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 23:56:51: #1 total tags in treatment: 39503695 INFO @ Mon, 29 Jun 2020 23:56:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:56:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:56:52: #1 tags after filtering in treatment: 39503695 INFO @ Mon, 29 Jun 2020 23:56:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:56:52: #1 finished! INFO @ Mon, 29 Jun 2020 23:56:52: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:56:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:56:52: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 23:56:52: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 23:56:52: #1 total tags in treatment: 39503695 INFO @ Mon, 29 Jun 2020 23:56:52: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:56:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:56:53: #1 tags after filtering in treatment: 39503695 INFO @ Mon, 29 Jun 2020 23:56:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:56:53: #1 finished! INFO @ Mon, 29 Jun 2020 23:56:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:56:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:56:54: #2 number of paired peaks: 42 WARNING @ Mon, 29 Jun 2020 23:56:54: 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 @ Mon, 29 Jun 2020 23:56:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.10_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/dm3/SRX2692975/SRX2692975.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:56:55: #2 number of paired peaks: 42 WARNING @ Mon, 29 Jun 2020 23:56:55: 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 @ Mon, 29 Jun 2020 23:56:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.20_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/dm3/SRX2692975/SRX2692975.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2692975/SRX2692975.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling