Job ID = 6527686 SRX = SRX220302 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:33:40 prefetch.2.10.7: 1) Downloading 'SRR653347'... 2020-06-29T13:33:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:40:56 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:40:56 prefetch.2.10.7: 1) 'SRR653347' was downloaded successfully Read 33925515 spots for SRR653347/SRR653347.sra Written 33925515 spots for SRR653347/SRR653347.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: 00:10:00 33925515 reads; of these: 33925515 (100.00%) were unpaired; of these: 1701556 (5.02%) aligned 0 times 20942296 (61.73%) aligned exactly 1 time 11281663 (33.25%) aligned >1 times 94.98% overall alignment rate Time searching: 00:10:00 Overall time: 00:10:00 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 12 files... [bam_rmdupse_core] 4601439 / 32223959 = 0.1428 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 23:06:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.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 23:06:40: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:06:40: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:06:46: 1000000 INFO @ Mon, 29 Jun 2020 23:06:51: 2000000 INFO @ Mon, 29 Jun 2020 23:06:57: 3000000 INFO @ Mon, 29 Jun 2020 23:07:02: 4000000 INFO @ Mon, 29 Jun 2020 23:07:08: 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 @ Mon, 29 Jun 2020 23:07:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.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 23:07:10: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:07:10: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:07:13: 6000000 INFO @ Mon, 29 Jun 2020 23:07:16: 1000000 INFO @ Mon, 29 Jun 2020 23:07:19: 7000000 INFO @ Mon, 29 Jun 2020 23:07:21: 2000000 INFO @ Mon, 29 Jun 2020 23:07:25: 8000000 INFO @ Mon, 29 Jun 2020 23:07:27: 3000000 INFO @ Mon, 29 Jun 2020 23:07:30: 9000000 INFO @ Mon, 29 Jun 2020 23:07:32: 4000000 INFO @ Mon, 29 Jun 2020 23:07:36: 10000000 INFO @ Mon, 29 Jun 2020 23:07:38: 5000000 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 23:07:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.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 23:07:40: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:07:40: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:07:41: 11000000 INFO @ Mon, 29 Jun 2020 23:07:44: 6000000 INFO @ Mon, 29 Jun 2020 23:07:46: 1000000 INFO @ Mon, 29 Jun 2020 23:07:47: 12000000 INFO @ Mon, 29 Jun 2020 23:07:49: 7000000 INFO @ Mon, 29 Jun 2020 23:07:52: 2000000 INFO @ Mon, 29 Jun 2020 23:07:53: 13000000 INFO @ Mon, 29 Jun 2020 23:07:55: 8000000 INFO @ Mon, 29 Jun 2020 23:07:57: 3000000 INFO @ Mon, 29 Jun 2020 23:07:58: 14000000 INFO @ Mon, 29 Jun 2020 23:08:01: 9000000 INFO @ Mon, 29 Jun 2020 23:08:03: 4000000 INFO @ Mon, 29 Jun 2020 23:08:04: 15000000 INFO @ Mon, 29 Jun 2020 23:08:06: 10000000 INFO @ Mon, 29 Jun 2020 23:08:09: 5000000 INFO @ Mon, 29 Jun 2020 23:08:09: 16000000 INFO @ Mon, 29 Jun 2020 23:08:12: 11000000 INFO @ Mon, 29 Jun 2020 23:08:15: 17000000 INFO @ Mon, 29 Jun 2020 23:08:15: 6000000 INFO @ Mon, 29 Jun 2020 23:08:18: 12000000 INFO @ Mon, 29 Jun 2020 23:08:20: 18000000 INFO @ Mon, 29 Jun 2020 23:08:21: 7000000 INFO @ Mon, 29 Jun 2020 23:08:23: 13000000 INFO @ Mon, 29 Jun 2020 23:08:26: 19000000 INFO @ Mon, 29 Jun 2020 23:08:26: 8000000 INFO @ Mon, 29 Jun 2020 23:08:29: 14000000 INFO @ Mon, 29 Jun 2020 23:08:32: 20000000 INFO @ Mon, 29 Jun 2020 23:08:32: 9000000 INFO @ Mon, 29 Jun 2020 23:08:34: 15000000 INFO @ Mon, 29 Jun 2020 23:08:38: 21000000 INFO @ Mon, 29 Jun 2020 23:08:38: 10000000 INFO @ Mon, 29 Jun 2020 23:08:40: 16000000 INFO @ Mon, 29 Jun 2020 23:08:43: 22000000 INFO @ Mon, 29 Jun 2020 23:08:44: 11000000 INFO @ Mon, 29 Jun 2020 23:08:46: 17000000 INFO @ Mon, 29 Jun 2020 23:08:49: 23000000 INFO @ Mon, 29 Jun 2020 23:08:49: 12000000 INFO @ Mon, 29 Jun 2020 23:08:52: 18000000 INFO @ Mon, 29 Jun 2020 23:08:55: 24000000 INFO @ Mon, 29 Jun 2020 23:08:55: 13000000 INFO @ Mon, 29 Jun 2020 23:08:58: 19000000 INFO @ Mon, 29 Jun 2020 23:09:01: 25000000 INFO @ Mon, 29 Jun 2020 23:09:01: 14000000 INFO @ Mon, 29 Jun 2020 23:09:03: 20000000 INFO @ Mon, 29 Jun 2020 23:09:06: 26000000 INFO @ Mon, 29 Jun 2020 23:09:07: 15000000 INFO @ Mon, 29 Jun 2020 23:09:09: 21000000 INFO @ Mon, 29 Jun 2020 23:09:12: 27000000 INFO @ Mon, 29 Jun 2020 23:09:12: 16000000 INFO @ Mon, 29 Jun 2020 23:09:15: 22000000 INFO @ Mon, 29 Jun 2020 23:09:16: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 23:09:16: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 23:09:16: #1 total tags in treatment: 27622520 INFO @ Mon, 29 Jun 2020 23:09:16: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:09:16: #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 23:09:16: #1 tags after filtering in treatment: 27622520 INFO @ Mon, 29 Jun 2020 23:09:16: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:09:16: #1 finished! INFO @ Mon, 29 Jun 2020 23:09:16: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:09:16: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:09:18: 17000000 INFO @ Mon, 29 Jun 2020 23:09:18: #2 number of paired peaks: 90 WARNING @ Mon, 29 Jun 2020 23:09:18: Too few paired peaks (90) 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 23:09:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.05_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/SRX220302/SRX220302.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:09:21: 23000000 INFO @ Mon, 29 Jun 2020 23:09:24: 18000000 INFO @ Mon, 29 Jun 2020 23:09:27: 24000000 INFO @ Mon, 29 Jun 2020 23:09:30: 19000000 INFO @ Mon, 29 Jun 2020 23:09:33: 25000000 INFO @ Mon, 29 Jun 2020 23:09:36: 20000000 INFO @ Mon, 29 Jun 2020 23:09:38: 26000000 INFO @ Mon, 29 Jun 2020 23:09:42: 21000000 INFO @ Mon, 29 Jun 2020 23:09:44: 27000000 INFO @ Mon, 29 Jun 2020 23:09:48: 22000000 INFO @ Mon, 29 Jun 2020 23:09:48: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 23:09:48: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 23:09:48: #1 total tags in treatment: 27622520 INFO @ Mon, 29 Jun 2020 23:09:48: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:09:48: #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 23:09:48: #1 tags after filtering in treatment: 27622520 INFO @ Mon, 29 Jun 2020 23:09:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:09:48: #1 finished! INFO @ Mon, 29 Jun 2020 23:09:48: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:09:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:09:50: #2 number of paired peaks: 90 WARNING @ Mon, 29 Jun 2020 23:09:50: Too few paired peaks (90) 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 23:09:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.10_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/SRX220302/SRX220302.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:09:54: 23000000 INFO @ Mon, 29 Jun 2020 23:09:59: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:10:05: 25000000 INFO @ Mon, 29 Jun 2020 23:10:10: 26000000 INFO @ Mon, 29 Jun 2020 23:10:16: 27000000 INFO @ Mon, 29 Jun 2020 23:10:20: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 23:10:20: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 23:10:20: #1 total tags in treatment: 27622520 INFO @ Mon, 29 Jun 2020 23:10:20: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:10:20: #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 23:10:20: #1 tags after filtering in treatment: 27622520 INFO @ Mon, 29 Jun 2020 23:10:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:10:20: #1 finished! INFO @ Mon, 29 Jun 2020 23:10:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:10:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:10:22: #2 number of paired peaks: 90 WARNING @ Mon, 29 Jun 2020 23:10:22: Too few paired peaks (90) 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 23:10:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.20_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/SRX220302/SRX220302.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX220302/SRX220302.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。