Job ID = 6528475 SRX = SRX7158305 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:12:32 prefetch.2.10.7: 1) Downloading 'SRR10467043'... 2020-06-29T15:12:32 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:20:16 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:20:16 prefetch.2.10.7: 1) 'SRR10467043' was downloaded successfully 2020-06-29T15:20:16 prefetch.2.10.7: 'SRR10467043' has 0 unresolved dependencies Read 74821158 spots for SRR10467043/SRR10467043.sra Written 74821158 spots for SRR10467043/SRR10467043.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: 01:12:19 74821158 reads; of these: 74821158 (100.00%) were unpaired; of these: 5215037 (6.97%) aligned 0 times 20541204 (27.45%) aligned exactly 1 time 49064917 (65.58%) aligned >1 times 93.03% overall alignment rate Time searching: 01:12:19 Overall time: 01:12:19 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 32 files... [bam_rmdupse_core] 27916685 / 69606121 = 0.4011 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, 30 Jun 2020 02:23:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.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 @ Tue, 30 Jun 2020 02:23:34: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:23:34: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:23:40: 1000000 INFO @ Tue, 30 Jun 2020 02:23:46: 2000000 INFO @ Tue, 30 Jun 2020 02:23:52: 3000000 INFO @ Tue, 30 Jun 2020 02:23:58: 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, 30 Jun 2020 02:24:04: 5000000 INFO @ Tue, 30 Jun 2020 02:24:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.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 @ Tue, 30 Jun 2020 02:24:04: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:24:04: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:24:11: 6000000 INFO @ Tue, 30 Jun 2020 02:24:11: 1000000 INFO @ Tue, 30 Jun 2020 02:24:18: 7000000 INFO @ Tue, 30 Jun 2020 02:24:18: 2000000 INFO @ Tue, 30 Jun 2020 02:24:24: 8000000 INFO @ Tue, 30 Jun 2020 02:24:24: 3000000 INFO @ Tue, 30 Jun 2020 02:24:31: 9000000 INFO @ Tue, 30 Jun 2020 02:24:31: 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, 30 Jun 2020 02:24:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.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 @ Tue, 30 Jun 2020 02:24:34: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:24:34: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:24:38: 5000000 INFO @ Tue, 30 Jun 2020 02:24:38: 10000000 INFO @ Tue, 30 Jun 2020 02:24:42: 1000000 INFO @ Tue, 30 Jun 2020 02:24:46: 11000000 INFO @ Tue, 30 Jun 2020 02:24:46: 6000000 INFO @ Tue, 30 Jun 2020 02:24:50: 2000000 INFO @ Tue, 30 Jun 2020 02:24:53: 12000000 INFO @ Tue, 30 Jun 2020 02:24:54: 7000000 INFO @ Tue, 30 Jun 2020 02:24:58: 3000000 INFO @ Tue, 30 Jun 2020 02:25:01: 13000000 INFO @ Tue, 30 Jun 2020 02:25:01: 8000000 INFO @ Tue, 30 Jun 2020 02:25:06: 4000000 INFO @ Tue, 30 Jun 2020 02:25:09: 14000000 INFO @ Tue, 30 Jun 2020 02:25:09: 9000000 INFO @ Tue, 30 Jun 2020 02:25:14: 5000000 INFO @ Tue, 30 Jun 2020 02:25:16: 15000000 INFO @ Tue, 30 Jun 2020 02:25:16: 10000000 INFO @ Tue, 30 Jun 2020 02:25:23: 6000000 INFO @ Tue, 30 Jun 2020 02:25:23: 16000000 INFO @ Tue, 30 Jun 2020 02:25:24: 11000000 INFO @ Tue, 30 Jun 2020 02:25:31: 7000000 INFO @ Tue, 30 Jun 2020 02:25:31: 17000000 INFO @ Tue, 30 Jun 2020 02:25:31: 12000000 INFO @ Tue, 30 Jun 2020 02:25:38: 18000000 INFO @ Tue, 30 Jun 2020 02:25:39: 8000000 INFO @ Tue, 30 Jun 2020 02:25:39: 13000000 INFO @ Tue, 30 Jun 2020 02:25:46: 19000000 INFO @ Tue, 30 Jun 2020 02:25:46: 14000000 INFO @ Tue, 30 Jun 2020 02:25:47: 9000000 INFO @ Tue, 30 Jun 2020 02:25:54: 20000000 INFO @ Tue, 30 Jun 2020 02:25:54: 15000000 INFO @ Tue, 30 Jun 2020 02:25:55: 10000000 INFO @ Tue, 30 Jun 2020 02:26:01: 21000000 INFO @ Tue, 30 Jun 2020 02:26:01: 16000000 INFO @ Tue, 30 Jun 2020 02:26:03: 11000000 INFO @ Tue, 30 Jun 2020 02:26:09: 22000000 INFO @ Tue, 30 Jun 2020 02:26:09: 17000000 INFO @ Tue, 30 Jun 2020 02:26:11: 12000000 INFO @ Tue, 30 Jun 2020 02:26:16: 23000000 INFO @ Tue, 30 Jun 2020 02:26:17: 18000000 INFO @ Tue, 30 Jun 2020 02:26:19: 13000000 INFO @ Tue, 30 Jun 2020 02:26:24: 24000000 INFO @ Tue, 30 Jun 2020 02:26:24: 19000000 INFO @ Tue, 30 Jun 2020 02:26:27: 14000000 INFO @ Tue, 30 Jun 2020 02:26:31: 25000000 INFO @ Tue, 30 Jun 2020 02:26:32: 20000000 INFO @ Tue, 30 Jun 2020 02:26:35: 15000000 INFO @ Tue, 30 Jun 2020 02:26:39: 26000000 INFO @ Tue, 30 Jun 2020 02:26:39: 21000000 INFO @ Tue, 30 Jun 2020 02:26:43: 16000000 INFO @ Tue, 30 Jun 2020 02:26:47: 27000000 INFO @ Tue, 30 Jun 2020 02:26:47: 22000000 INFO @ Tue, 30 Jun 2020 02:26:52: 17000000 INFO @ Tue, 30 Jun 2020 02:26:54: 28000000 INFO @ Tue, 30 Jun 2020 02:26:55: 23000000 INFO @ Tue, 30 Jun 2020 02:27:00: 18000000 INFO @ Tue, 30 Jun 2020 02:27:02: 29000000 INFO @ Tue, 30 Jun 2020 02:27:02: 24000000 INFO @ Tue, 30 Jun 2020 02:27:09: 19000000 INFO @ Tue, 30 Jun 2020 02:27:10: 30000000 INFO @ Tue, 30 Jun 2020 02:27:10: 25000000 INFO @ Tue, 30 Jun 2020 02:27:17: 20000000 INFO @ Tue, 30 Jun 2020 02:27:17: 31000000 INFO @ Tue, 30 Jun 2020 02:27:18: 26000000 INFO @ Tue, 30 Jun 2020 02:27:25: 32000000 INFO @ Tue, 30 Jun 2020 02:27:25: 27000000 INFO @ Tue, 30 Jun 2020 02:27:25: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:27:33: 33000000 INFO @ Tue, 30 Jun 2020 02:27:33: 28000000 INFO @ Tue, 30 Jun 2020 02:27:34: 22000000 INFO @ Tue, 30 Jun 2020 02:27:40: 34000000 INFO @ Tue, 30 Jun 2020 02:27:41: 29000000 INFO @ Tue, 30 Jun 2020 02:27:43: 23000000 INFO @ Tue, 30 Jun 2020 02:27:48: 35000000 INFO @ Tue, 30 Jun 2020 02:27:48: 30000000 INFO @ Tue, 30 Jun 2020 02:27:51: 24000000 INFO @ Tue, 30 Jun 2020 02:27:56: 36000000 INFO @ Tue, 30 Jun 2020 02:27:56: 31000000 INFO @ Tue, 30 Jun 2020 02:28:00: 25000000 INFO @ Tue, 30 Jun 2020 02:28:03: 37000000 INFO @ Tue, 30 Jun 2020 02:28:04: 32000000 INFO @ Tue, 30 Jun 2020 02:28:08: 26000000 INFO @ Tue, 30 Jun 2020 02:28:11: 38000000 INFO @ Tue, 30 Jun 2020 02:28:11: 33000000 INFO @ Tue, 30 Jun 2020 02:28:16: 27000000 INFO @ Tue, 30 Jun 2020 02:28:19: 39000000 INFO @ Tue, 30 Jun 2020 02:28:19: 34000000 INFO @ Tue, 30 Jun 2020 02:28:24: 28000000 INFO @ Tue, 30 Jun 2020 02:28:26: 40000000 INFO @ Tue, 30 Jun 2020 02:28:27: 35000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 02:28:32: 29000000 INFO @ Tue, 30 Jun 2020 02:28:34: 41000000 INFO @ Tue, 30 Jun 2020 02:28:34: 36000000 INFO @ Tue, 30 Jun 2020 02:28:39: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 02:28:39: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 02:28:39: #1 total tags in treatment: 41689436 INFO @ Tue, 30 Jun 2020 02:28:39: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:28:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:28:40: #1 tags after filtering in treatment: 41689436 INFO @ Tue, 30 Jun 2020 02:28:40: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:28:40: #1 finished! INFO @ Tue, 30 Jun 2020 02:28:40: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:28:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:28:40: 30000000 INFO @ Tue, 30 Jun 2020 02:28:42: 37000000 INFO @ Tue, 30 Jun 2020 02:28:42: #2 number of paired peaks: 93 WARNING @ Tue, 30 Jun 2020 02:28:42: Too few paired peaks (93) 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, 30 Jun 2020 02:28:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.05_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/dm3/SRX7158305/SRX7158305.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:28:48: 31000000 INFO @ Tue, 30 Jun 2020 02:28:49: 38000000 INFO @ Tue, 30 Jun 2020 02:28:56: 32000000 INFO @ Tue, 30 Jun 2020 02:28:57: 39000000 INFO @ Tue, 30 Jun 2020 02:29:04: 33000000 INFO @ Tue, 30 Jun 2020 02:29:04: 40000000 INFO @ Tue, 30 Jun 2020 02:29:11: 41000000 INFO @ Tue, 30 Jun 2020 02:29:12: 34000000 INFO @ Tue, 30 Jun 2020 02:29:17: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 02:29:17: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 02:29:17: #1 total tags in treatment: 41689436 INFO @ Tue, 30 Jun 2020 02:29:17: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:29:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:29:17: #1 tags after filtering in treatment: 41689436 INFO @ Tue, 30 Jun 2020 02:29:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:29:17: #1 finished! INFO @ Tue, 30 Jun 2020 02:29:17: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:29:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:29:19: 35000000 INFO @ Tue, 30 Jun 2020 02:29:20: #2 number of paired peaks: 93 WARNING @ Tue, 30 Jun 2020 02:29:20: Too few paired peaks (93) 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, 30 Jun 2020 02:29:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.10_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/SRX7158305/SRX7158305.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:29:27: 36000000 INFO @ Tue, 30 Jun 2020 02:29:34: 37000000 INFO @ Tue, 30 Jun 2020 02:29:41: 38000000 INFO @ Tue, 30 Jun 2020 02:29:48: 39000000 INFO @ Tue, 30 Jun 2020 02:29:56: 40000000 INFO @ Tue, 30 Jun 2020 02:30:03: 41000000 INFO @ Tue, 30 Jun 2020 02:30:08: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 02:30:08: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 02:30:08: #1 total tags in treatment: 41689436 INFO @ Tue, 30 Jun 2020 02:30:08: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:30:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:30:09: #1 tags after filtering in treatment: 41689436 INFO @ Tue, 30 Jun 2020 02:30:09: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:30:09: #1 finished! INFO @ Tue, 30 Jun 2020 02:30:09: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:30:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:30:11: #2 number of paired peaks: 93 WARNING @ Tue, 30 Jun 2020 02:30:11: Too few paired peaks (93) 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, 30 Jun 2020 02:30:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.20_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/SRX7158305/SRX7158305.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7158305/SRX7158305.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling