Job ID = 6527536 SRX = SRX104984 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:49:23 prefetch.2.10.7: 1) Downloading 'SRR363428'... 2020-06-29T12:49:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:53:05 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:53:05 prefetch.2.10.7: 1) 'SRR363428' was downloaded successfully Read 35045956 spots for SRR363428/SRR363428.sra Written 35045956 spots for SRR363428/SRR363428.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: 00:11:50 35045956 reads; of these: 35045956 (100.00%) were unpaired; of these: 1141155 (3.26%) aligned 0 times 24006946 (68.50%) aligned exactly 1 time 9897855 (28.24%) aligned >1 times 96.74% overall alignment rate Time searching: 00:11:50 Overall time: 00:11:50 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] 5310104 / 33904801 = 0.1566 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 22:24:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.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 22:24:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:24:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:24:43: 1000000 INFO @ Mon, 29 Jun 2020 22:24:49: 2000000 INFO @ Mon, 29 Jun 2020 22:24:55: 3000000 INFO @ Mon, 29 Jun 2020 22:25:01: 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 22:25:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.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 22:25:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:25:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:25:08: 5000000 INFO @ Mon, 29 Jun 2020 22:25:13: 1000000 INFO @ Mon, 29 Jun 2020 22:25:14: 6000000 INFO @ Mon, 29 Jun 2020 22:25:20: 2000000 INFO @ Mon, 29 Jun 2020 22:25:21: 7000000 INFO @ Mon, 29 Jun 2020 22:25:27: 3000000 INFO @ Mon, 29 Jun 2020 22:25:28: 8000000 INFO @ Mon, 29 Jun 2020 22:25:34: 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 22:25:35: 9000000 INFO @ Mon, 29 Jun 2020 22:25:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.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 22:25:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:25:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:25:41: 5000000 INFO @ Mon, 29 Jun 2020 22:25:43: 10000000 INFO @ Mon, 29 Jun 2020 22:25:44: 1000000 INFO @ Mon, 29 Jun 2020 22:25:49: 6000000 INFO @ Mon, 29 Jun 2020 22:25:50: 11000000 INFO @ Mon, 29 Jun 2020 22:25:51: 2000000 INFO @ Mon, 29 Jun 2020 22:25:56: 7000000 INFO @ Mon, 29 Jun 2020 22:25:58: 12000000 INFO @ Mon, 29 Jun 2020 22:25:59: 3000000 INFO @ Mon, 29 Jun 2020 22:26:03: 8000000 INFO @ Mon, 29 Jun 2020 22:26:04: 13000000 INFO @ Mon, 29 Jun 2020 22:26:07: 4000000 INFO @ Mon, 29 Jun 2020 22:26:11: 9000000 INFO @ Mon, 29 Jun 2020 22:26:12: 14000000 INFO @ Mon, 29 Jun 2020 22:26:14: 5000000 INFO @ Mon, 29 Jun 2020 22:26:18: 10000000 INFO @ Mon, 29 Jun 2020 22:26:19: 15000000 INFO @ Mon, 29 Jun 2020 22:26:22: 6000000 INFO @ Mon, 29 Jun 2020 22:26:25: 11000000 INFO @ Mon, 29 Jun 2020 22:26:26: 16000000 INFO @ Mon, 29 Jun 2020 22:26:29: 7000000 INFO @ Mon, 29 Jun 2020 22:26:33: 17000000 INFO @ Mon, 29 Jun 2020 22:26:33: 12000000 INFO @ Mon, 29 Jun 2020 22:26:37: 8000000 INFO @ Mon, 29 Jun 2020 22:26:39: 18000000 INFO @ Mon, 29 Jun 2020 22:26:40: 13000000 INFO @ Mon, 29 Jun 2020 22:26:45: 9000000 INFO @ Mon, 29 Jun 2020 22:26:47: 19000000 INFO @ Mon, 29 Jun 2020 22:26:47: 14000000 INFO @ Mon, 29 Jun 2020 22:26:52: 10000000 INFO @ Mon, 29 Jun 2020 22:26:54: 15000000 INFO @ Mon, 29 Jun 2020 22:26:54: 20000000 INFO @ Mon, 29 Jun 2020 22:27:00: 11000000 INFO @ Mon, 29 Jun 2020 22:27:01: 16000000 INFO @ Mon, 29 Jun 2020 22:27:02: 21000000 INFO @ Mon, 29 Jun 2020 22:27:07: 12000000 INFO @ Mon, 29 Jun 2020 22:27:08: 17000000 INFO @ Mon, 29 Jun 2020 22:27:09: 22000000 INFO @ Mon, 29 Jun 2020 22:27:14: 13000000 INFO @ Mon, 29 Jun 2020 22:27:14: 18000000 INFO @ Mon, 29 Jun 2020 22:27:17: 23000000 INFO @ Mon, 29 Jun 2020 22:27:22: 14000000 INFO @ Mon, 29 Jun 2020 22:27:22: 19000000 INFO @ Mon, 29 Jun 2020 22:27:24: 24000000 INFO @ Mon, 29 Jun 2020 22:27:29: 15000000 INFO @ Mon, 29 Jun 2020 22:27:29: 20000000 INFO @ Mon, 29 Jun 2020 22:27:31: 25000000 INFO @ Mon, 29 Jun 2020 22:27:36: 16000000 INFO @ Mon, 29 Jun 2020 22:27:37: 21000000 INFO @ Mon, 29 Jun 2020 22:27:39: 26000000 INFO @ Mon, 29 Jun 2020 22:27:43: 17000000 INFO @ Mon, 29 Jun 2020 22:27:44: 22000000 INFO @ Mon, 29 Jun 2020 22:27:46: 27000000 INFO @ Mon, 29 Jun 2020 22:27:50: 18000000 INFO @ Mon, 29 Jun 2020 22:27:52: 23000000 INFO @ Mon, 29 Jun 2020 22:27:53: 28000000 INFO @ Mon, 29 Jun 2020 22:27:57: 19000000 INFO @ Mon, 29 Jun 2020 22:27:58: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:27:58: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:27:58: #1 total tags in treatment: 28594697 INFO @ Mon, 29 Jun 2020 22:27:58: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:27:58: #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 22:27:58: #1 tags after filtering in treatment: 28594697 INFO @ Mon, 29 Jun 2020 22:27:58: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:27:58: #1 finished! INFO @ Mon, 29 Jun 2020 22:27:58: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:27:58: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:27:59: 24000000 INFO @ Mon, 29 Jun 2020 22:28:00: #2 number of paired peaks: 3 WARNING @ Mon, 29 Jun 2020 22:28:00: 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 22:28:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.05_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/SRX104984/SRX104984.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:28:04: 20000000 INFO @ Mon, 29 Jun 2020 22:28:06: 25000000 INFO @ Mon, 29 Jun 2020 22:28:11: 21000000 INFO @ Mon, 29 Jun 2020 22:28:13: 26000000 INFO @ Mon, 29 Jun 2020 22:28:18: 22000000 INFO @ Mon, 29 Jun 2020 22:28:19: 27000000 INFO @ Mon, 29 Jun 2020 22:28:25: 23000000 INFO @ Mon, 29 Jun 2020 22:28:26: 28000000 INFO @ Mon, 29 Jun 2020 22:28:31: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:28:31: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:28:31: #1 total tags in treatment: 28594697 INFO @ Mon, 29 Jun 2020 22:28:31: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:28:31: #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 22:28:31: #1 tags after filtering in treatment: 28594697 INFO @ Mon, 29 Jun 2020 22:28:31: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:28:31: #1 finished! INFO @ Mon, 29 Jun 2020 22:28:31: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:28:31: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:28:32: 24000000 INFO @ Mon, 29 Jun 2020 22:28:33: #2 number of paired peaks: 3 WARNING @ Mon, 29 Jun 2020 22:28:33: 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 22:28:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.10_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/SRX104984/SRX104984.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:28:38: 25000000 INFO @ Mon, 29 Jun 2020 22:28:45: 26000000 INFO @ Mon, 29 Jun 2020 22:28:52: 27000000 INFO @ Mon, 29 Jun 2020 22:28:58: 28000000 INFO @ Mon, 29 Jun 2020 22:29:03: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:29:03: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:29:03: #1 total tags in treatment: 28594697 INFO @ Mon, 29 Jun 2020 22:29:03: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:29:03: #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 22:29:03: #1 tags after filtering in treatment: 28594697 INFO @ Mon, 29 Jun 2020 22:29:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:29:03: #1 finished! INFO @ Mon, 29 Jun 2020 22:29:03: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:29:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:29:05: #2 number of paired peaks: 3 WARNING @ Mon, 29 Jun 2020 22:29:05: 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 22:29:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.20_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/SRX104984/SRX104984.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104984/SRX104984.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。