Job ID = 6527511 SRX = SRX041394 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:45:50 prefetch.2.10.7: 1) Downloading 'SRR099127'... 2020-06-29T12:45:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:48:07 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:48:07 prefetch.2.10.7: 1) 'SRR099127' was downloaded successfully Read 24170012 spots for SRR099127/SRR099127.sra Written 24170012 spots for SRR099127/SRR099127.sra 2020-06-29T12:49:24 prefetch.2.10.7: 1) Downloading 'SRR099128'... 2020-06-29T12:49:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:51:40 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:51:41 prefetch.2.10.7: 'SRR099128' is valid 2020-06-29T12:51:41 prefetch.2.10.7: 1) 'SRR099128' was downloaded successfully Read 22494690 spots for SRR099128/SRR099128.sra Written 22494690 spots for SRR099128/SRR099128.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: 00:09:59 46664702 reads; of these: 46664702 (100.00%) were unpaired; of these: 2297543 (4.92%) aligned 0 times 37134392 (79.58%) aligned exactly 1 time 7232767 (15.50%) aligned >1 times 95.08% overall alignment rate Time searching: 00:09:59 Overall time: 00:09:59 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] 14305161 / 44367159 = 0.3224 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 22:19:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.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 22:19:09: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:19:09: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:19:14: 1000000 INFO @ Mon, 29 Jun 2020 22:19:20: 2000000 INFO @ Mon, 29 Jun 2020 22:19:25: 3000000 INFO @ Mon, 29 Jun 2020 22:19:31: 4000000 INFO @ Mon, 29 Jun 2020 22:19:36: 5000000 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 22:19:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.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 22:19:39: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:19:39: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:19:41: 6000000 INFO @ Mon, 29 Jun 2020 22:19:45: 1000000 INFO @ Mon, 29 Jun 2020 22:19:47: 7000000 INFO @ Mon, 29 Jun 2020 22:19:50: 2000000 INFO @ Mon, 29 Jun 2020 22:19:52: 8000000 INFO @ Mon, 29 Jun 2020 22:19:56: 3000000 INFO @ Mon, 29 Jun 2020 22:19:58: 9000000 INFO @ Mon, 29 Jun 2020 22:20:02: 4000000 INFO @ Mon, 29 Jun 2020 22:20:03: 10000000 BedGraph に変換中... INFO @ Mon, 29 Jun 2020 22:20:07: 5000000 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 22:20:09: 11000000 INFO @ Mon, 29 Jun 2020 22:20:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.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 22:20:09: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:20:09: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:20:13: 6000000 INFO @ Mon, 29 Jun 2020 22:20:14: 12000000 INFO @ Mon, 29 Jun 2020 22:20:15: 1000000 INFO @ Mon, 29 Jun 2020 22:20:19: 7000000 INFO @ Mon, 29 Jun 2020 22:20:20: 2000000 INFO @ Mon, 29 Jun 2020 22:20:20: 13000000 INFO @ Mon, 29 Jun 2020 22:20:24: 8000000 INFO @ Mon, 29 Jun 2020 22:20:25: 3000000 INFO @ Mon, 29 Jun 2020 22:20:26: 14000000 INFO @ Mon, 29 Jun 2020 22:20:30: 9000000 INFO @ Mon, 29 Jun 2020 22:20:30: 4000000 INFO @ Mon, 29 Jun 2020 22:20:31: 15000000 INFO @ Mon, 29 Jun 2020 22:20:35: 5000000 INFO @ Mon, 29 Jun 2020 22:20:35: 10000000 INFO @ Mon, 29 Jun 2020 22:20:37: 16000000 INFO @ Mon, 29 Jun 2020 22:20:40: 6000000 INFO @ Mon, 29 Jun 2020 22:20:41: 11000000 INFO @ Mon, 29 Jun 2020 22:20:42: 17000000 INFO @ Mon, 29 Jun 2020 22:20:46: 7000000 INFO @ Mon, 29 Jun 2020 22:20:47: 12000000 INFO @ Mon, 29 Jun 2020 22:20:48: 18000000 INFO @ Mon, 29 Jun 2020 22:20:51: 8000000 INFO @ Mon, 29 Jun 2020 22:20:52: 13000000 INFO @ Mon, 29 Jun 2020 22:20:53: 19000000 INFO @ Mon, 29 Jun 2020 22:20:56: 9000000 INFO @ Mon, 29 Jun 2020 22:20:58: 14000000 INFO @ Mon, 29 Jun 2020 22:20:59: 20000000 INFO @ Mon, 29 Jun 2020 22:21:01: 10000000 INFO @ Mon, 29 Jun 2020 22:21:04: 15000000 INFO @ Mon, 29 Jun 2020 22:21:04: 21000000 INFO @ Mon, 29 Jun 2020 22:21:06: 11000000 INFO @ Mon, 29 Jun 2020 22:21:09: 16000000 INFO @ Mon, 29 Jun 2020 22:21:10: 22000000 INFO @ Mon, 29 Jun 2020 22:21:11: 12000000 INFO @ Mon, 29 Jun 2020 22:21:15: 17000000 INFO @ Mon, 29 Jun 2020 22:21:15: 23000000 INFO @ Mon, 29 Jun 2020 22:21:16: 13000000 INFO @ Mon, 29 Jun 2020 22:21:21: 18000000 INFO @ Mon, 29 Jun 2020 22:21:21: 24000000 INFO @ Mon, 29 Jun 2020 22:21:21: 14000000 INFO @ Mon, 29 Jun 2020 22:21:26: 19000000 INFO @ Mon, 29 Jun 2020 22:21:27: 15000000 INFO @ Mon, 29 Jun 2020 22:21:27: 25000000 INFO @ Mon, 29 Jun 2020 22:21:32: 20000000 INFO @ Mon, 29 Jun 2020 22:21:32: 16000000 INFO @ Mon, 29 Jun 2020 22:21:33: 26000000 INFO @ Mon, 29 Jun 2020 22:21:37: 17000000 INFO @ Mon, 29 Jun 2020 22:21:37: 21000000 INFO @ Mon, 29 Jun 2020 22:21:39: 27000000 INFO @ Mon, 29 Jun 2020 22:21:42: 18000000 INFO @ Mon, 29 Jun 2020 22:21:43: 22000000 INFO @ Mon, 29 Jun 2020 22:21:45: 28000000 INFO @ Mon, 29 Jun 2020 22:21:47: 19000000 INFO @ Mon, 29 Jun 2020 22:21:49: 23000000 INFO @ Mon, 29 Jun 2020 22:21:50: 29000000 INFO @ Mon, 29 Jun 2020 22:21:52: 20000000 INFO @ Mon, 29 Jun 2020 22:21:54: 24000000 INFO @ Mon, 29 Jun 2020 22:21:56: 30000000 INFO @ Mon, 29 Jun 2020 22:21:57: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:21:57: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:21:57: #1 total tags in treatment: 30061998 INFO @ Mon, 29 Jun 2020 22:21:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:21:57: #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 22:21:57: 21000000 INFO @ Mon, 29 Jun 2020 22:21:57: #1 tags after filtering in treatment: 30061998 INFO @ Mon, 29 Jun 2020 22:21:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:21:57: #1 finished! INFO @ Mon, 29 Jun 2020 22:21:57: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:21:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:21:59: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 22:21:59: Too few paired peaks (25) 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 22:21:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.05_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/SRX041394/SRX041394.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:22:00: 25000000 INFO @ Mon, 29 Jun 2020 22:22:02: 22000000 INFO @ Mon, 29 Jun 2020 22:22:06: 26000000 INFO @ Mon, 29 Jun 2020 22:22:08: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:22:12: 27000000 INFO @ Mon, 29 Jun 2020 22:22:13: 24000000 INFO @ Mon, 29 Jun 2020 22:22:17: 28000000 INFO @ Mon, 29 Jun 2020 22:22:18: 25000000 INFO @ Mon, 29 Jun 2020 22:22:23: 29000000 INFO @ Mon, 29 Jun 2020 22:22:23: 26000000 INFO @ Mon, 29 Jun 2020 22:22:29: 27000000 INFO @ Mon, 29 Jun 2020 22:22:29: 30000000 INFO @ Mon, 29 Jun 2020 22:22:29: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:22:29: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:22:29: #1 total tags in treatment: 30061998 INFO @ Mon, 29 Jun 2020 22:22:29: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:22:29: #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 22:22:30: #1 tags after filtering in treatment: 30061998 INFO @ Mon, 29 Jun 2020 22:22:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:22:30: #1 finished! INFO @ Mon, 29 Jun 2020 22:22:30: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:22:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:22:32: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 22:22:32: Too few paired peaks (25) 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 22:22:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.10_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/SRX041394/SRX041394.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:22:34: 28000000 INFO @ Mon, 29 Jun 2020 22:22:39: 29000000 INFO @ Mon, 29 Jun 2020 22:22:44: 30000000 INFO @ Mon, 29 Jun 2020 22:22:44: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:22:44: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:22:44: #1 total tags in treatment: 30061998 INFO @ Mon, 29 Jun 2020 22:22:44: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:22:44: #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 22:22:45: #1 tags after filtering in treatment: 30061998 INFO @ Mon, 29 Jun 2020 22:22:45: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:22:45: #1 finished! INFO @ Mon, 29 Jun 2020 22:22:45: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:22:45: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:22:47: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 22:22:47: Too few paired peaks (25) 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 22:22:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.20_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/SRX041394/SRX041394.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041394/SRX041394.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。