Job ID = 6527550 SRX = SRX1085382 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:01:28 prefetch.2.10.7: 1) Downloading 'SRR2090182'... 2020-06-29T13:01:28 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:03:58 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:03:58 prefetch.2.10.7: 1) 'SRR2090182' was downloaded successfully Read 33736384 spots for SRR2090182/SRR2090182.sra Written 33736384 spots for SRR2090182/SRR2090182.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: 00:09:23 33736384 reads; of these: 33736384 (100.00%) were unpaired; of these: 1240552 (3.68%) aligned 0 times 24915227 (73.85%) aligned exactly 1 time 7580605 (22.47%) aligned >1 times 96.32% overall alignment rate Time searching: 00:09:23 Overall time: 00:09:23 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] 2709270 / 32495832 = 0.0834 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 22:29:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.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 22:29:13: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:29:13: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:29:18: 1000000 INFO @ Mon, 29 Jun 2020 22:29:24: 2000000 INFO @ Mon, 29 Jun 2020 22:29:30: 3000000 INFO @ Mon, 29 Jun 2020 22:29:35: 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 22:29:41: 5000000 INFO @ Mon, 29 Jun 2020 22:29:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.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 22:29:43: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:29:43: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:29:47: 6000000 INFO @ Mon, 29 Jun 2020 22:29:48: 1000000 INFO @ Mon, 29 Jun 2020 22:29:53: 7000000 INFO @ Mon, 29 Jun 2020 22:29:54: 2000000 INFO @ Mon, 29 Jun 2020 22:29:59: 8000000 INFO @ Mon, 29 Jun 2020 22:30:00: 3000000 INFO @ Mon, 29 Jun 2020 22:30:05: 4000000 INFO @ Mon, 29 Jun 2020 22:30:05: 9000000 INFO @ Mon, 29 Jun 2020 22:30:11: 5000000 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 22:30:12: 10000000 INFO @ Mon, 29 Jun 2020 22:30:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.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 22:30:13: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:30:13: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:30:17: 6000000 INFO @ Mon, 29 Jun 2020 22:30:18: 11000000 INFO @ Mon, 29 Jun 2020 22:30:19: 1000000 INFO @ Mon, 29 Jun 2020 22:30:22: 7000000 INFO @ Mon, 29 Jun 2020 22:30:24: 2000000 INFO @ Mon, 29 Jun 2020 22:30:25: 12000000 INFO @ Mon, 29 Jun 2020 22:30:28: 8000000 INFO @ Mon, 29 Jun 2020 22:30:30: 3000000 INFO @ Mon, 29 Jun 2020 22:30:31: 13000000 INFO @ Mon, 29 Jun 2020 22:30:33: 9000000 INFO @ Mon, 29 Jun 2020 22:30:35: 4000000 INFO @ Mon, 29 Jun 2020 22:30:37: 14000000 INFO @ Mon, 29 Jun 2020 22:30:39: 10000000 INFO @ Mon, 29 Jun 2020 22:30:41: 5000000 INFO @ Mon, 29 Jun 2020 22:30:43: 15000000 INFO @ Mon, 29 Jun 2020 22:30:45: 11000000 INFO @ Mon, 29 Jun 2020 22:30:47: 6000000 INFO @ Mon, 29 Jun 2020 22:30:49: 16000000 INFO @ Mon, 29 Jun 2020 22:30:50: 12000000 INFO @ Mon, 29 Jun 2020 22:30:52: 7000000 INFO @ Mon, 29 Jun 2020 22:30:56: 17000000 INFO @ Mon, 29 Jun 2020 22:30:56: 13000000 INFO @ Mon, 29 Jun 2020 22:30:58: 8000000 INFO @ Mon, 29 Jun 2020 22:31:02: 18000000 INFO @ Mon, 29 Jun 2020 22:31:02: 14000000 INFO @ Mon, 29 Jun 2020 22:31:04: 9000000 INFO @ Mon, 29 Jun 2020 22:31:08: 15000000 INFO @ Mon, 29 Jun 2020 22:31:08: 19000000 INFO @ Mon, 29 Jun 2020 22:31:10: 10000000 INFO @ Mon, 29 Jun 2020 22:31:13: 16000000 INFO @ Mon, 29 Jun 2020 22:31:14: 20000000 INFO @ Mon, 29 Jun 2020 22:31:15: 11000000 INFO @ Mon, 29 Jun 2020 22:31:19: 17000000 INFO @ Mon, 29 Jun 2020 22:31:20: 21000000 INFO @ Mon, 29 Jun 2020 22:31:21: 12000000 INFO @ Mon, 29 Jun 2020 22:31:25: 18000000 INFO @ Mon, 29 Jun 2020 22:31:26: 22000000 INFO @ Mon, 29 Jun 2020 22:31:27: 13000000 INFO @ Mon, 29 Jun 2020 22:31:31: 19000000 INFO @ Mon, 29 Jun 2020 22:31:32: 23000000 INFO @ Mon, 29 Jun 2020 22:31:33: 14000000 INFO @ Mon, 29 Jun 2020 22:31:36: 20000000 INFO @ Mon, 29 Jun 2020 22:31:39: 24000000 INFO @ Mon, 29 Jun 2020 22:31:39: 15000000 INFO @ Mon, 29 Jun 2020 22:31:42: 21000000 INFO @ Mon, 29 Jun 2020 22:31:44: 16000000 INFO @ Mon, 29 Jun 2020 22:31:44: 25000000 INFO @ Mon, 29 Jun 2020 22:31:48: 22000000 INFO @ Mon, 29 Jun 2020 22:31:50: 17000000 INFO @ Mon, 29 Jun 2020 22:31:51: 26000000 INFO @ Mon, 29 Jun 2020 22:31:54: 23000000 INFO @ Mon, 29 Jun 2020 22:31:56: 18000000 INFO @ Mon, 29 Jun 2020 22:31:57: 27000000 INFO @ Mon, 29 Jun 2020 22:31:59: 24000000 INFO @ Mon, 29 Jun 2020 22:32:01: 19000000 INFO @ Mon, 29 Jun 2020 22:32:03: 28000000 INFO @ Mon, 29 Jun 2020 22:32:05: 25000000 INFO @ Mon, 29 Jun 2020 22:32:07: 20000000 INFO @ Mon, 29 Jun 2020 22:32:09: 29000000 INFO @ Mon, 29 Jun 2020 22:32:11: 26000000 INFO @ Mon, 29 Jun 2020 22:32:13: 21000000 INFO @ Mon, 29 Jun 2020 22:32:14: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:32:14: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:32:14: #1 total tags in treatment: 29786562 INFO @ Mon, 29 Jun 2020 22:32:14: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:32:14: #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 22:32:15: #1 tags after filtering in treatment: 29786562 INFO @ Mon, 29 Jun 2020 22:32:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:32:15: #1 finished! INFO @ Mon, 29 Jun 2020 22:32:15: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:32:15: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:32:16: 27000000 INFO @ Mon, 29 Jun 2020 22:32:17: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 22:32:17: Too few paired peaks (67) 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 22:32:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.05_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/SRX1085382/SRX1085382.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:32:18: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:32:22: 28000000 INFO @ Mon, 29 Jun 2020 22:32:24: 23000000 INFO @ Mon, 29 Jun 2020 22:32:27: 29000000 INFO @ Mon, 29 Jun 2020 22:32:29: 24000000 INFO @ Mon, 29 Jun 2020 22:32:32: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:32:32: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:32:32: #1 total tags in treatment: 29786562 INFO @ Mon, 29 Jun 2020 22:32:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:32:32: #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 22:32:32: #1 tags after filtering in treatment: 29786562 INFO @ Mon, 29 Jun 2020 22:32:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:32:32: #1 finished! INFO @ Mon, 29 Jun 2020 22:32:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:32:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:32:34: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 22:32:34: Too few paired peaks (67) 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 22:32:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.10_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/SRX1085382/SRX1085382.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:32:35: 25000000 INFO @ Mon, 29 Jun 2020 22:32:40: 26000000 INFO @ Mon, 29 Jun 2020 22:32:45: 27000000 INFO @ Mon, 29 Jun 2020 22:32:51: 28000000 INFO @ Mon, 29 Jun 2020 22:32:56: 29000000 INFO @ Mon, 29 Jun 2020 22:33:00: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:33:00: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:33:00: #1 total tags in treatment: 29786562 INFO @ Mon, 29 Jun 2020 22:33:00: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:33:00: #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 22:33:01: #1 tags after filtering in treatment: 29786562 INFO @ Mon, 29 Jun 2020 22:33:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:33:01: #1 finished! INFO @ Mon, 29 Jun 2020 22:33:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:33:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:33:03: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 22:33:03: Too few paired peaks (67) 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 22:33:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.20_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/SRX1085382/SRX1085382.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085382/SRX1085382.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。