Job ID = 6527534 SRX = SRX104981 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:48:25 prefetch.2.10.7: 1) Downloading 'SRR363425'... 2020-06-29T12:48:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:52:24 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:52:24 prefetch.2.10.7: 1) 'SRR363425' was downloaded successfully Read 39143586 spots for SRR363425/SRR363425.sra Written 39143586 spots for SRR363425/SRR363425.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: 00:10:36 39143586 reads; of these: 39143586 (100.00%) were unpaired; of these: 4834055 (12.35%) aligned 0 times 24846988 (63.48%) aligned exactly 1 time 9462543 (24.17%) aligned >1 times 87.65% overall alignment rate Time searching: 00:10:36 Overall time: 00:10:36 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] 5966889 / 34309531 = 0.1739 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 22:19:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.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 22:19:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:19:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:19:11: 1000000 INFO @ Mon, 29 Jun 2020 22:19:17: 2000000 INFO @ Mon, 29 Jun 2020 22:19:23: 3000000 INFO @ Mon, 29 Jun 2020 22:19:29: 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 22:19:35: 5000000 INFO @ Mon, 29 Jun 2020 22:19:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.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 22:19:35: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:19:35: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:19:41: 6000000 INFO @ Mon, 29 Jun 2020 22:19:41: 1000000 INFO @ Mon, 29 Jun 2020 22:19:47: 2000000 INFO @ Mon, 29 Jun 2020 22:19:47: 7000000 INFO @ Mon, 29 Jun 2020 22:19:53: 3000000 INFO @ Mon, 29 Jun 2020 22:19:53: 8000000 INFO @ Mon, 29 Jun 2020 22:19:58: 4000000 INFO @ Mon, 29 Jun 2020 22:19:59: 9000000 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 22:20:04: 5000000 INFO @ Mon, 29 Jun 2020 22:20:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.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 22:20:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:20:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:20:05: 10000000 INFO @ Mon, 29 Jun 2020 22:20:10: 6000000 INFO @ Mon, 29 Jun 2020 22:20:11: 1000000 INFO @ Mon, 29 Jun 2020 22:20:12: 11000000 INFO @ Mon, 29 Jun 2020 22:20:15: 7000000 INFO @ Mon, 29 Jun 2020 22:20:17: 2000000 INFO @ Mon, 29 Jun 2020 22:20:18: 12000000 INFO @ Mon, 29 Jun 2020 22:20:21: 8000000 INFO @ Mon, 29 Jun 2020 22:20:22: 3000000 INFO @ Mon, 29 Jun 2020 22:20:24: 13000000 INFO @ Mon, 29 Jun 2020 22:20:27: 9000000 INFO @ Mon, 29 Jun 2020 22:20:28: 4000000 INFO @ Mon, 29 Jun 2020 22:20:30: 14000000 INFO @ Mon, 29 Jun 2020 22:20:32: 10000000 INFO @ Mon, 29 Jun 2020 22:20:34: 5000000 INFO @ Mon, 29 Jun 2020 22:20:37: 15000000 INFO @ Mon, 29 Jun 2020 22:20:38: 11000000 INFO @ Mon, 29 Jun 2020 22:20:39: 6000000 INFO @ Mon, 29 Jun 2020 22:20:43: 16000000 INFO @ Mon, 29 Jun 2020 22:20:44: 12000000 INFO @ Mon, 29 Jun 2020 22:20:45: 7000000 INFO @ Mon, 29 Jun 2020 22:20:49: 17000000 INFO @ Mon, 29 Jun 2020 22:20:50: 13000000 INFO @ Mon, 29 Jun 2020 22:20:51: 8000000 INFO @ Mon, 29 Jun 2020 22:20:55: 18000000 INFO @ Mon, 29 Jun 2020 22:20:56: 14000000 INFO @ Mon, 29 Jun 2020 22:20:56: 9000000 INFO @ Mon, 29 Jun 2020 22:21:01: 15000000 INFO @ Mon, 29 Jun 2020 22:21:02: 19000000 INFO @ Mon, 29 Jun 2020 22:21:02: 10000000 INFO @ Mon, 29 Jun 2020 22:21:07: 16000000 INFO @ Mon, 29 Jun 2020 22:21:08: 20000000 INFO @ Mon, 29 Jun 2020 22:21:08: 11000000 INFO @ Mon, 29 Jun 2020 22:21:13: 17000000 INFO @ Mon, 29 Jun 2020 22:21:14: 12000000 INFO @ Mon, 29 Jun 2020 22:21:14: 21000000 INFO @ Mon, 29 Jun 2020 22:21:19: 18000000 INFO @ Mon, 29 Jun 2020 22:21:19: 13000000 INFO @ Mon, 29 Jun 2020 22:21:20: 22000000 INFO @ Mon, 29 Jun 2020 22:21:24: 19000000 INFO @ Mon, 29 Jun 2020 22:21:25: 14000000 INFO @ Mon, 29 Jun 2020 22:21:26: 23000000 INFO @ Mon, 29 Jun 2020 22:21:30: 20000000 INFO @ Mon, 29 Jun 2020 22:21:31: 15000000 INFO @ Mon, 29 Jun 2020 22:21:32: 24000000 INFO @ Mon, 29 Jun 2020 22:21:36: 21000000 INFO @ Mon, 29 Jun 2020 22:21:37: 16000000 INFO @ Mon, 29 Jun 2020 22:21:39: 25000000 INFO @ Mon, 29 Jun 2020 22:21:41: 22000000 INFO @ Mon, 29 Jun 2020 22:21:42: 17000000 INFO @ Mon, 29 Jun 2020 22:21:45: 26000000 INFO @ Mon, 29 Jun 2020 22:21:47: 23000000 INFO @ Mon, 29 Jun 2020 22:21:48: 18000000 INFO @ Mon, 29 Jun 2020 22:21:51: 27000000 INFO @ Mon, 29 Jun 2020 22:21:53: 24000000 INFO @ Mon, 29 Jun 2020 22:21:54: 19000000 INFO @ Mon, 29 Jun 2020 22:21:57: 28000000 INFO @ Mon, 29 Jun 2020 22:21:59: 25000000 INFO @ Mon, 29 Jun 2020 22:21:59: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:21:59: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:21:59: #1 total tags in treatment: 28342642 INFO @ Mon, 29 Jun 2020 22:21:59: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:21:59: #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 22:21:59: #1 tags after filtering in treatment: 28342642 INFO @ Mon, 29 Jun 2020 22:21:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:21:59: #1 finished! INFO @ Mon, 29 Jun 2020 22:21:59: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:21:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:22:00: 20000000 INFO @ Mon, 29 Jun 2020 22:22:01: #2 number of paired peaks: 3 WARNING @ Mon, 29 Jun 2020 22:22:01: Too few paired peaks (3) 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 22:22:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.05_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/SRX104981/SRX104981.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:22:04: 26000000 INFO @ Mon, 29 Jun 2020 22:22:05: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:22:10: 27000000 INFO @ Mon, 29 Jun 2020 22:22:10: 22000000 INFO @ Mon, 29 Jun 2020 22:22:15: 28000000 INFO @ Mon, 29 Jun 2020 22:22:16: 23000000 INFO @ Mon, 29 Jun 2020 22:22:17: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:22:17: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:22:17: #1 total tags in treatment: 28342642 INFO @ Mon, 29 Jun 2020 22:22:17: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:22:17: #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 22:22:17: #1 tags after filtering in treatment: 28342642 INFO @ Mon, 29 Jun 2020 22:22:17: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:22:17: #1 finished! INFO @ Mon, 29 Jun 2020 22:22:17: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:22:17: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:22:19: #2 number of paired peaks: 3 WARNING @ Mon, 29 Jun 2020 22:22:19: Too few paired peaks (3) 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 22:22:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.10_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/SRX104981/SRX104981.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:22:21: 24000000 INFO @ Mon, 29 Jun 2020 22:22:26: 25000000 INFO @ Mon, 29 Jun 2020 22:22:31: 26000000 INFO @ Mon, 29 Jun 2020 22:22:36: 27000000 INFO @ Mon, 29 Jun 2020 22:22:42: 28000000 INFO @ Mon, 29 Jun 2020 22:22:43: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:22:43: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:22:43: #1 total tags in treatment: 28342642 INFO @ Mon, 29 Jun 2020 22:22:43: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:22:43: #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 22:22:44: #1 tags after filtering in treatment: 28342642 INFO @ Mon, 29 Jun 2020 22:22:44: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:22:44: #1 finished! INFO @ Mon, 29 Jun 2020 22:22:44: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:22:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:22:46: #2 number of paired peaks: 3 WARNING @ Mon, 29 Jun 2020 22:22:46: Too few paired peaks (3) 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 22:22:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.20_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/SRX104981/SRX104981.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104981/SRX104981.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。