Job ID = 6527721 SRX = SRX2520638 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:28:33 prefetch.2.10.7: 1) Downloading 'SRR5206757'... 2020-06-29T13:28:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:35:40 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:35:40 prefetch.2.10.7: 1) 'SRR5206757' was downloaded successfully Read 48575456 spots for SRR5206757/SRR5206757.sra Written 48575456 spots for SRR5206757/SRR5206757.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: 00:14:09 48575456 reads; of these: 48575456 (100.00%) were unpaired; of these: 1241880 (2.56%) aligned 0 times 36355897 (74.84%) aligned exactly 1 time 10977679 (22.60%) aligned >1 times 97.44% overall alignment rate Time searching: 00:14:10 Overall time: 00:14:10 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 20 files... [bam_rmdupse_core] 11618163 / 47333576 = 0.2455 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 23:11:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.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 23:11:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:11:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:11:12: 1000000 INFO @ Mon, 29 Jun 2020 23:11:18: 2000000 INFO @ Mon, 29 Jun 2020 23:11:24: 3000000 INFO @ Mon, 29 Jun 2020 23:11:29: 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 @ Mon, 29 Jun 2020 23:11:35: 5000000 INFO @ Mon, 29 Jun 2020 23:11:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.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 23:11:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:11:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:11:41: 6000000 INFO @ Mon, 29 Jun 2020 23:11:43: 1000000 INFO @ Mon, 29 Jun 2020 23:11:48: 7000000 INFO @ Mon, 29 Jun 2020 23:11:49: 2000000 INFO @ Mon, 29 Jun 2020 23:11:55: 8000000 INFO @ Mon, 29 Jun 2020 23:11:56: 3000000 INFO @ Mon, 29 Jun 2020 23:12:01: 9000000 INFO @ Mon, 29 Jun 2020 23:12:02: 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 @ Mon, 29 Jun 2020 23:12:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.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 23:12:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:12:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:12:08: 10000000 INFO @ Mon, 29 Jun 2020 23:12:09: 5000000 INFO @ Mon, 29 Jun 2020 23:12:14: 1000000 INFO @ Mon, 29 Jun 2020 23:12:15: 11000000 INFO @ Mon, 29 Jun 2020 23:12:16: 6000000 INFO @ Mon, 29 Jun 2020 23:12:22: 2000000 INFO @ Mon, 29 Jun 2020 23:12:23: 12000000 INFO @ Mon, 29 Jun 2020 23:12:24: 7000000 INFO @ Mon, 29 Jun 2020 23:12:30: 3000000 INFO @ Mon, 29 Jun 2020 23:12:30: 13000000 INFO @ Mon, 29 Jun 2020 23:12:31: 8000000 INFO @ Mon, 29 Jun 2020 23:12:38: 14000000 INFO @ Mon, 29 Jun 2020 23:12:38: 4000000 INFO @ Mon, 29 Jun 2020 23:12:38: 9000000 INFO @ Mon, 29 Jun 2020 23:12:45: 15000000 INFO @ Mon, 29 Jun 2020 23:12:46: 5000000 INFO @ Mon, 29 Jun 2020 23:12:46: 10000000 INFO @ Mon, 29 Jun 2020 23:12:53: 16000000 INFO @ Mon, 29 Jun 2020 23:12:53: 11000000 INFO @ Mon, 29 Jun 2020 23:12:54: 6000000 INFO @ Mon, 29 Jun 2020 23:13:00: 17000000 INFO @ Mon, 29 Jun 2020 23:13:01: 12000000 INFO @ Mon, 29 Jun 2020 23:13:01: 7000000 INFO @ Mon, 29 Jun 2020 23:13:08: 18000000 INFO @ Mon, 29 Jun 2020 23:13:08: 13000000 INFO @ Mon, 29 Jun 2020 23:13:09: 8000000 INFO @ Mon, 29 Jun 2020 23:13:15: 19000000 INFO @ Mon, 29 Jun 2020 23:13:16: 14000000 INFO @ Mon, 29 Jun 2020 23:13:17: 9000000 INFO @ Mon, 29 Jun 2020 23:13:23: 20000000 INFO @ Mon, 29 Jun 2020 23:13:23: 15000000 INFO @ Mon, 29 Jun 2020 23:13:25: 10000000 INFO @ Mon, 29 Jun 2020 23:13:30: 21000000 INFO @ Mon, 29 Jun 2020 23:13:31: 16000000 INFO @ Mon, 29 Jun 2020 23:13:33: 11000000 INFO @ Mon, 29 Jun 2020 23:13:37: 22000000 INFO @ Mon, 29 Jun 2020 23:13:38: 17000000 INFO @ Mon, 29 Jun 2020 23:13:41: 12000000 INFO @ Mon, 29 Jun 2020 23:13:45: 23000000 INFO @ Mon, 29 Jun 2020 23:13:45: 18000000 INFO @ Mon, 29 Jun 2020 23:13:48: 13000000 INFO @ Mon, 29 Jun 2020 23:13:52: 24000000 INFO @ Mon, 29 Jun 2020 23:13:53: 19000000 INFO @ Mon, 29 Jun 2020 23:13:56: 14000000 INFO @ Mon, 29 Jun 2020 23:14:00: 25000000 INFO @ Mon, 29 Jun 2020 23:14:00: 20000000 INFO @ Mon, 29 Jun 2020 23:14:04: 15000000 INFO @ Mon, 29 Jun 2020 23:14:07: 26000000 INFO @ Mon, 29 Jun 2020 23:14:08: 21000000 INFO @ Mon, 29 Jun 2020 23:14:12: 16000000 INFO @ Mon, 29 Jun 2020 23:14:15: 27000000 INFO @ Mon, 29 Jun 2020 23:14:15: 22000000 INFO @ Mon, 29 Jun 2020 23:14:20: 17000000 INFO @ Mon, 29 Jun 2020 23:14:22: 28000000 INFO @ Mon, 29 Jun 2020 23:14:23: 23000000 INFO @ Mon, 29 Jun 2020 23:14:28: 18000000 INFO @ Mon, 29 Jun 2020 23:14:30: 29000000 INFO @ Mon, 29 Jun 2020 23:14:30: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:14:35: 19000000 INFO @ Mon, 29 Jun 2020 23:14:37: 30000000 INFO @ Mon, 29 Jun 2020 23:14:37: 25000000 INFO @ Mon, 29 Jun 2020 23:14:43: 20000000 INFO @ Mon, 29 Jun 2020 23:14:45: 31000000 INFO @ Mon, 29 Jun 2020 23:14:45: 26000000 INFO @ Mon, 29 Jun 2020 23:14:51: 21000000 INFO @ Mon, 29 Jun 2020 23:14:52: 32000000 INFO @ Mon, 29 Jun 2020 23:14:52: 27000000 INFO @ Mon, 29 Jun 2020 23:14:59: 22000000 INFO @ Mon, 29 Jun 2020 23:15:00: 33000000 INFO @ Mon, 29 Jun 2020 23:15:00: 28000000 INFO @ Mon, 29 Jun 2020 23:15:07: 23000000 INFO @ Mon, 29 Jun 2020 23:15:07: 34000000 INFO @ Mon, 29 Jun 2020 23:15:07: 29000000 INFO @ Mon, 29 Jun 2020 23:15:14: 35000000 INFO @ Mon, 29 Jun 2020 23:15:15: 30000000 INFO @ Mon, 29 Jun 2020 23:15:15: 24000000 INFO @ Mon, 29 Jun 2020 23:15:20: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:15:20: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:15:20: #1 total tags in treatment: 35715413 INFO @ Mon, 29 Jun 2020 23:15:20: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:15:20: #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 23:15:20: #1 tags after filtering in treatment: 35715413 INFO @ Mon, 29 Jun 2020 23:15:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:15:20: #1 finished! INFO @ Mon, 29 Jun 2020 23:15:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:15:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:15:22: 31000000 INFO @ Mon, 29 Jun 2020 23:15:22: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 23:15:22: Too few paired peaks (41) 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 23:15:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.05_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/SRX2520638/SRX2520638.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:15:22: 25000000 INFO @ Mon, 29 Jun 2020 23:15:29: 32000000 INFO @ Mon, 29 Jun 2020 23:15:30: 26000000 INFO @ Mon, 29 Jun 2020 23:15:36: 33000000 INFO @ Mon, 29 Jun 2020 23:15:38: 27000000 INFO @ Mon, 29 Jun 2020 23:15:43: 34000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:15:46: 28000000 INFO @ Mon, 29 Jun 2020 23:15:50: 35000000 INFO @ Mon, 29 Jun 2020 23:15:54: 29000000 INFO @ Mon, 29 Jun 2020 23:15:56: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:15:56: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:15:56: #1 total tags in treatment: 35715413 INFO @ Mon, 29 Jun 2020 23:15:56: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:15:56: #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 23:15:56: #1 tags after filtering in treatment: 35715413 INFO @ Mon, 29 Jun 2020 23:15:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:15:56: #1 finished! INFO @ Mon, 29 Jun 2020 23:15:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:15:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:15:59: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 23:15:59: Too few paired peaks (41) 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 23:15:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.10_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/SRX2520638/SRX2520638.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:16:01: 30000000 INFO @ Mon, 29 Jun 2020 23:16:08: 31000000 INFO @ Mon, 29 Jun 2020 23:16:15: 32000000 INFO @ Mon, 29 Jun 2020 23:16:22: 33000000 INFO @ Mon, 29 Jun 2020 23:16:29: 34000000 INFO @ Mon, 29 Jun 2020 23:16:36: 35000000 INFO @ Mon, 29 Jun 2020 23:16:41: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:16:41: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:16:41: #1 total tags in treatment: 35715413 INFO @ Mon, 29 Jun 2020 23:16:41: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:16:41: #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 23:16:42: #1 tags after filtering in treatment: 35715413 INFO @ Mon, 29 Jun 2020 23:16:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:16:42: #1 finished! INFO @ Mon, 29 Jun 2020 23:16:42: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:16:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:16:44: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 23:16:44: Too few paired peaks (41) 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 23:16:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.20_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/SRX2520638/SRX2520638.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520638/SRX2520638.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling