Job ID = 6527728 SRX = SRX2564142 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:21:09 prefetch.2.10.7: 1) Downloading 'SRR5259261'... 2020-06-29T13:21:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:27:08 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:27:08 prefetch.2.10.7: 1) 'SRR5259261' was downloaded successfully 2020-06-29T13:27:08 prefetch.2.10.7: 'SRR5259261' has 0 unresolved dependencies Read 46769695 spots for SRR5259261/SRR5259261.sra Written 46769695 spots for SRR5259261/SRR5259261.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: 00:19:57 46769695 reads; of these: 46769695 (100.00%) were unpaired; of these: 5001182 (10.69%) aligned 0 times 32002306 (68.43%) aligned exactly 1 time 9766207 (20.88%) aligned >1 times 89.31% overall alignment rate Time searching: 00:19:57 Overall time: 00:19:57 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] 5444320 / 41768513 = 0.1303 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 23:27:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.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 23:27:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:27:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:27:13: 1000000 INFO @ Mon, 29 Jun 2020 23:27:21: 2000000 INFO @ Mon, 29 Jun 2020 23:27:28: 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 23:27:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.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 23:27:35: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:27:35: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:27:36: 4000000 INFO @ Mon, 29 Jun 2020 23:27:43: 1000000 INFO @ Mon, 29 Jun 2020 23:27:44: 5000000 INFO @ Mon, 29 Jun 2020 23:27:51: 2000000 INFO @ Mon, 29 Jun 2020 23:27:52: 6000000 INFO @ Mon, 29 Jun 2020 23:27:59: 3000000 INFO @ Mon, 29 Jun 2020 23:28:01: 7000000 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 23:28:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.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 23:28:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:28:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:28:06: 4000000 INFO @ Mon, 29 Jun 2020 23:28:09: 8000000 INFO @ Mon, 29 Jun 2020 23:28:14: 1000000 INFO @ Mon, 29 Jun 2020 23:28:14: 5000000 INFO @ Mon, 29 Jun 2020 23:28:17: 9000000 INFO @ Mon, 29 Jun 2020 23:28:22: 6000000 INFO @ Mon, 29 Jun 2020 23:28:22: 2000000 INFO @ Mon, 29 Jun 2020 23:28:25: 10000000 INFO @ Mon, 29 Jun 2020 23:28:30: 7000000 INFO @ Mon, 29 Jun 2020 23:28:30: 3000000 INFO @ Mon, 29 Jun 2020 23:28:33: 11000000 INFO @ Mon, 29 Jun 2020 23:28:38: 8000000 INFO @ Mon, 29 Jun 2020 23:28:39: 4000000 INFO @ Mon, 29 Jun 2020 23:28:41: 12000000 INFO @ Mon, 29 Jun 2020 23:28:46: 9000000 INFO @ Mon, 29 Jun 2020 23:28:47: 5000000 INFO @ Mon, 29 Jun 2020 23:28:49: 13000000 INFO @ Mon, 29 Jun 2020 23:28:54: 10000000 INFO @ Mon, 29 Jun 2020 23:28:55: 6000000 INFO @ Mon, 29 Jun 2020 23:28:57: 14000000 INFO @ Mon, 29 Jun 2020 23:29:01: 11000000 INFO @ Mon, 29 Jun 2020 23:29:03: 7000000 INFO @ Mon, 29 Jun 2020 23:29:05: 15000000 INFO @ Mon, 29 Jun 2020 23:29:09: 12000000 INFO @ Mon, 29 Jun 2020 23:29:11: 8000000 INFO @ Mon, 29 Jun 2020 23:29:14: 16000000 INFO @ Mon, 29 Jun 2020 23:29:17: 13000000 INFO @ Mon, 29 Jun 2020 23:29:19: 9000000 INFO @ Mon, 29 Jun 2020 23:29:22: 17000000 INFO @ Mon, 29 Jun 2020 23:29:25: 14000000 INFO @ Mon, 29 Jun 2020 23:29:27: 10000000 INFO @ Mon, 29 Jun 2020 23:29:30: 18000000 INFO @ Mon, 29 Jun 2020 23:29:32: 15000000 INFO @ Mon, 29 Jun 2020 23:29:35: 11000000 INFO @ Mon, 29 Jun 2020 23:29:39: 19000000 INFO @ Mon, 29 Jun 2020 23:29:40: 16000000 INFO @ Mon, 29 Jun 2020 23:29:43: 12000000 INFO @ Mon, 29 Jun 2020 23:29:47: 20000000 INFO @ Mon, 29 Jun 2020 23:29:48: 17000000 INFO @ Mon, 29 Jun 2020 23:29:51: 13000000 INFO @ Mon, 29 Jun 2020 23:29:55: 21000000 INFO @ Mon, 29 Jun 2020 23:29:56: 18000000 INFO @ Mon, 29 Jun 2020 23:29:59: 14000000 INFO @ Mon, 29 Jun 2020 23:30:03: 22000000 INFO @ Mon, 29 Jun 2020 23:30:04: 19000000 INFO @ Mon, 29 Jun 2020 23:30:07: 15000000 INFO @ Mon, 29 Jun 2020 23:30:12: 23000000 INFO @ Mon, 29 Jun 2020 23:30:12: 20000000 INFO @ Mon, 29 Jun 2020 23:30:15: 16000000 INFO @ Mon, 29 Jun 2020 23:30:20: 24000000 INFO @ Mon, 29 Jun 2020 23:30:20: 21000000 INFO @ Mon, 29 Jun 2020 23:30:23: 17000000 INFO @ Mon, 29 Jun 2020 23:30:28: 22000000 INFO @ Mon, 29 Jun 2020 23:30:28: 25000000 INFO @ Mon, 29 Jun 2020 23:30:31: 18000000 INFO @ Mon, 29 Jun 2020 23:30:36: 23000000 INFO @ Mon, 29 Jun 2020 23:30:36: 26000000 INFO @ Mon, 29 Jun 2020 23:30:39: 19000000 INFO @ Mon, 29 Jun 2020 23:30:44: 24000000 INFO @ Mon, 29 Jun 2020 23:30:44: 27000000 INFO @ Mon, 29 Jun 2020 23:30:47: 20000000 INFO @ Mon, 29 Jun 2020 23:30:51: 25000000 INFO @ Mon, 29 Jun 2020 23:30:52: 28000000 INFO @ Mon, 29 Jun 2020 23:30:55: 21000000 INFO @ Mon, 29 Jun 2020 23:30:59: 26000000 INFO @ Mon, 29 Jun 2020 23:31:00: 29000000 INFO @ Mon, 29 Jun 2020 23:31:03: 22000000 INFO @ Mon, 29 Jun 2020 23:31:07: 27000000 INFO @ Mon, 29 Jun 2020 23:31:09: 30000000 INFO @ Mon, 29 Jun 2020 23:31:10: 23000000 INFO @ Mon, 29 Jun 2020 23:31:14: 28000000 INFO @ Mon, 29 Jun 2020 23:31:17: 31000000 INFO @ Mon, 29 Jun 2020 23:31:18: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:31:22: 29000000 INFO @ Mon, 29 Jun 2020 23:31:25: 32000000 INFO @ Mon, 29 Jun 2020 23:31:26: 25000000 INFO @ Mon, 29 Jun 2020 23:31:30: 30000000 INFO @ Mon, 29 Jun 2020 23:31:33: 33000000 INFO @ Mon, 29 Jun 2020 23:31:34: 26000000 INFO @ Mon, 29 Jun 2020 23:31:38: 31000000 INFO @ Mon, 29 Jun 2020 23:31:41: 34000000 INFO @ Mon, 29 Jun 2020 23:31:42: 27000000 INFO @ Mon, 29 Jun 2020 23:31:46: 32000000 INFO @ Mon, 29 Jun 2020 23:31:49: 35000000 INFO @ Mon, 29 Jun 2020 23:31:50: 28000000 INFO @ Mon, 29 Jun 2020 23:31:53: 33000000 INFO @ Mon, 29 Jun 2020 23:31:57: 36000000 INFO @ Mon, 29 Jun 2020 23:31:57: 29000000 INFO @ Mon, 29 Jun 2020 23:32:00: #1 tag size is determined as 73 bps INFO @ Mon, 29 Jun 2020 23:32:00: #1 tag size = 73 INFO @ Mon, 29 Jun 2020 23:32:00: #1 total tags in treatment: 36324193 INFO @ Mon, 29 Jun 2020 23:32:00: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:32:00: #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 23:32:01: #1 tags after filtering in treatment: 36324193 INFO @ Mon, 29 Jun 2020 23:32:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:32:01: #1 finished! INFO @ Mon, 29 Jun 2020 23:32:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:32:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:32:01: 34000000 INFO @ Mon, 29 Jun 2020 23:32:03: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 23:32:03: Too few paired peaks (39) 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 23:32:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.05_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/SRX2564142/SRX2564142.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:32:05: 30000000 INFO @ Mon, 29 Jun 2020 23:32:09: 35000000 INFO @ Mon, 29 Jun 2020 23:32:13: 31000000 INFO @ Mon, 29 Jun 2020 23:32:16: 36000000 INFO @ Mon, 29 Jun 2020 23:32:19: #1 tag size is determined as 73 bps INFO @ Mon, 29 Jun 2020 23:32:19: #1 tag size = 73 INFO @ Mon, 29 Jun 2020 23:32:19: #1 total tags in treatment: 36324193 INFO @ Mon, 29 Jun 2020 23:32:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:32:19: #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 23:32:19: #1 tags after filtering in treatment: 36324193 INFO @ Mon, 29 Jun 2020 23:32:19: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:32:19: #1 finished! INFO @ Mon, 29 Jun 2020 23:32:19: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:32:19: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:32:21: 32000000 INFO @ Mon, 29 Jun 2020 23:32:22: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 23:32:22: Too few paired peaks (39) 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 23:32:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.10_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/SRX2564142/SRX2564142.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:32:28: 33000000 INFO @ Mon, 29 Jun 2020 23:32:35: 34000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:32:42: 35000000 INFO @ Mon, 29 Jun 2020 23:32:49: 36000000 INFO @ Mon, 29 Jun 2020 23:32:51: #1 tag size is determined as 73 bps INFO @ Mon, 29 Jun 2020 23:32:51: #1 tag size = 73 INFO @ Mon, 29 Jun 2020 23:32:51: #1 total tags in treatment: 36324193 INFO @ Mon, 29 Jun 2020 23:32:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:32:51: #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 23:32:52: #1 tags after filtering in treatment: 36324193 INFO @ Mon, 29 Jun 2020 23:32:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:32:52: #1 finished! INFO @ Mon, 29 Jun 2020 23:32:52: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:32:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:32:54: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 23:32:54: Too few paired peaks (39) 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 23:32:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.20_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/SRX2564142/SRX2564142.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564142/SRX2564142.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling