Job ID = 6528311 SRX = SRX5343128 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:01:28 prefetch.2.10.7: 1) Downloading 'SRR8540828'... 2020-06-29T15:01:28 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:06:13 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:06:13 prefetch.2.10.7: 1) 'SRR8540828' was downloaded successfully 2020-06-29T15:06:13 prefetch.2.10.7: 'SRR8540828' has 0 unresolved dependencies Read 35466474 spots for SRR8540828/SRR8540828.sra Written 35466474 spots for SRR8540828/SRR8540828.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: 00:16:37 35466474 reads; of these: 35466474 (100.00%) were unpaired; of these: 1439725 (4.06%) aligned 0 times 22763541 (64.18%) aligned exactly 1 time 11263208 (31.76%) aligned >1 times 95.94% overall alignment rate Time searching: 00:16:37 Overall time: 00:16:37 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 16 files... [bam_rmdupse_core] 4798952 / 34026749 = 0.1410 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 00:48:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.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 00:48:28: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:48:28: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:48:35: 1000000 INFO @ Tue, 30 Jun 2020 00:48:42: 2000000 INFO @ Tue, 30 Jun 2020 00:48:48: 3000000 INFO @ Tue, 30 Jun 2020 00:48:55: 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 00:48:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.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 00:48:58: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:48:58: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:49:02: 5000000 INFO @ Tue, 30 Jun 2020 00:49:05: 1000000 INFO @ Tue, 30 Jun 2020 00:49:10: 6000000 INFO @ Tue, 30 Jun 2020 00:49:12: 2000000 INFO @ Tue, 30 Jun 2020 00:49:18: 7000000 INFO @ Tue, 30 Jun 2020 00:49:19: 3000000 INFO @ Tue, 30 Jun 2020 00:49:25: 8000000 INFO @ Tue, 30 Jun 2020 00:49:26: 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 00:49:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.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 00:49:28: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:49:28: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:49:33: 5000000 INFO @ Tue, 30 Jun 2020 00:49:33: 9000000 INFO @ Tue, 30 Jun 2020 00:49:36: 1000000 INFO @ Tue, 30 Jun 2020 00:49:40: 6000000 INFO @ Tue, 30 Jun 2020 00:49:40: 10000000 INFO @ Tue, 30 Jun 2020 00:49:43: 2000000 INFO @ Tue, 30 Jun 2020 00:49:46: 7000000 INFO @ Tue, 30 Jun 2020 00:49:48: 11000000 INFO @ Tue, 30 Jun 2020 00:49:51: 3000000 INFO @ Tue, 30 Jun 2020 00:49:53: 8000000 INFO @ Tue, 30 Jun 2020 00:49:55: 12000000 INFO @ Tue, 30 Jun 2020 00:49:59: 4000000 INFO @ Tue, 30 Jun 2020 00:50:00: 9000000 INFO @ Tue, 30 Jun 2020 00:50:03: 13000000 INFO @ Tue, 30 Jun 2020 00:50:06: 5000000 INFO @ Tue, 30 Jun 2020 00:50:07: 10000000 INFO @ Tue, 30 Jun 2020 00:50:10: 14000000 INFO @ Tue, 30 Jun 2020 00:50:14: 6000000 INFO @ Tue, 30 Jun 2020 00:50:14: 11000000 INFO @ Tue, 30 Jun 2020 00:50:17: 15000000 INFO @ Tue, 30 Jun 2020 00:50:21: 12000000 INFO @ Tue, 30 Jun 2020 00:50:22: 7000000 INFO @ Tue, 30 Jun 2020 00:50:25: 16000000 INFO @ Tue, 30 Jun 2020 00:50:28: 13000000 INFO @ Tue, 30 Jun 2020 00:50:30: 8000000 INFO @ Tue, 30 Jun 2020 00:50:32: 17000000 INFO @ Tue, 30 Jun 2020 00:50:35: 14000000 INFO @ Tue, 30 Jun 2020 00:50:37: 9000000 INFO @ Tue, 30 Jun 2020 00:50:39: 18000000 INFO @ Tue, 30 Jun 2020 00:50:42: 15000000 INFO @ Tue, 30 Jun 2020 00:50:45: 10000000 INFO @ Tue, 30 Jun 2020 00:50:47: 19000000 INFO @ Tue, 30 Jun 2020 00:50:48: 16000000 INFO @ Tue, 30 Jun 2020 00:50:53: 11000000 INFO @ Tue, 30 Jun 2020 00:50:54: 20000000 INFO @ Tue, 30 Jun 2020 00:50:55: 17000000 INFO @ Tue, 30 Jun 2020 00:51:00: 12000000 INFO @ Tue, 30 Jun 2020 00:51:01: 21000000 INFO @ Tue, 30 Jun 2020 00:51:02: 18000000 INFO @ Tue, 30 Jun 2020 00:51:08: 13000000 INFO @ Tue, 30 Jun 2020 00:51:09: 22000000 INFO @ Tue, 30 Jun 2020 00:51:09: 19000000 INFO @ Tue, 30 Jun 2020 00:51:16: 14000000 INFO @ Tue, 30 Jun 2020 00:51:16: 20000000 INFO @ Tue, 30 Jun 2020 00:51:16: 23000000 INFO @ Tue, 30 Jun 2020 00:51:23: 21000000 INFO @ Tue, 30 Jun 2020 00:51:23: 15000000 INFO @ Tue, 30 Jun 2020 00:51:23: 24000000 INFO @ Tue, 30 Jun 2020 00:51:29: 22000000 INFO @ Tue, 30 Jun 2020 00:51:31: 16000000 INFO @ Tue, 30 Jun 2020 00:51:31: 25000000 INFO @ Tue, 30 Jun 2020 00:51:36: 23000000 INFO @ Tue, 30 Jun 2020 00:51:38: 17000000 INFO @ Tue, 30 Jun 2020 00:51:38: 26000000 INFO @ Tue, 30 Jun 2020 00:51:43: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:51:45: 18000000 INFO @ Tue, 30 Jun 2020 00:51:46: 27000000 INFO @ Tue, 30 Jun 2020 00:51:50: 25000000 INFO @ Tue, 30 Jun 2020 00:51:53: 19000000 INFO @ Tue, 30 Jun 2020 00:51:53: 28000000 INFO @ Tue, 30 Jun 2020 00:51:56: 26000000 INFO @ Tue, 30 Jun 2020 00:52:01: 29000000 INFO @ Tue, 30 Jun 2020 00:52:01: 20000000 INFO @ Tue, 30 Jun 2020 00:52:02: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:52:02: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:52:02: #1 total tags in treatment: 29227797 INFO @ Tue, 30 Jun 2020 00:52:02: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:52:02: #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 00:52:03: #1 tags after filtering in treatment: 29227797 INFO @ Tue, 30 Jun 2020 00:52:03: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:52:03: #1 finished! INFO @ Tue, 30 Jun 2020 00:52:03: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:52:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:52:03: 27000000 INFO @ Tue, 30 Jun 2020 00:52:05: #2 number of paired peaks: 58 WARNING @ Tue, 30 Jun 2020 00:52:05: Too few paired peaks (58) 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 00:52:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.05_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/SRX5343128/SRX5343128.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:52:08: 21000000 INFO @ Tue, 30 Jun 2020 00:52:10: 28000000 INFO @ Tue, 30 Jun 2020 00:52:16: 22000000 INFO @ Tue, 30 Jun 2020 00:52:17: 29000000 INFO @ Tue, 30 Jun 2020 00:52:19: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:52:19: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:52:19: #1 total tags in treatment: 29227797 INFO @ Tue, 30 Jun 2020 00:52:19: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:52:19: #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 00:52:19: #1 tags after filtering in treatment: 29227797 INFO @ Tue, 30 Jun 2020 00:52:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:52:19: #1 finished! INFO @ Tue, 30 Jun 2020 00:52:19: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:52:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:52:21: #2 number of paired peaks: 58 WARNING @ Tue, 30 Jun 2020 00:52:21: Too few paired peaks (58) 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 00:52:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.10_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/SRX5343128/SRX5343128.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:52:23: 23000000 INFO @ Tue, 30 Jun 2020 00:52:30: 24000000 INFO @ Tue, 30 Jun 2020 00:52:37: 25000000 INFO @ Tue, 30 Jun 2020 00:52:44: 26000000 INFO @ Tue, 30 Jun 2020 00:52:52: 27000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:52:59: 28000000 INFO @ Tue, 30 Jun 2020 00:53:06: 29000000 INFO @ Tue, 30 Jun 2020 00:53:08: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:53:08: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:53:08: #1 total tags in treatment: 29227797 INFO @ Tue, 30 Jun 2020 00:53:08: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:53:08: #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 00:53:08: #1 tags after filtering in treatment: 29227797 INFO @ Tue, 30 Jun 2020 00:53:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:53:08: #1 finished! INFO @ Tue, 30 Jun 2020 00:53:08: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:53:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:53:10: #2 number of paired peaks: 58 WARNING @ Tue, 30 Jun 2020 00:53:10: Too few paired peaks (58) 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 00:53:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.20_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/SRX5343128/SRX5343128.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343128/SRX5343128.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling