Job ID = 6527705 SRX = SRX2325648 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:40:14 prefetch.2.10.7: 1) Downloading 'SRR4896336'... 2020-06-29T13:40:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:42:50 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:42:50 prefetch.2.10.7: 1) 'SRR4896336' was downloaded successfully 2020-06-29T13:42:50 prefetch.2.10.7: 'SRR4896336' has 0 unresolved dependencies Read 30853192 spots for SRR4896336/SRR4896336.sra Written 30853192 spots for SRR4896336/SRR4896336.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:14:36 30853192 reads; of these: 30853192 (100.00%) were unpaired; of these: 1618103 (5.24%) aligned 0 times 21349914 (69.20%) aligned exactly 1 time 7885175 (25.56%) aligned >1 times 94.76% overall alignment rate Time searching: 00:14:37 Overall time: 00:14:37 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] 4486977 / 29235089 = 0.1535 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 23:16:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.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 23:16:24: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:16:24: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:16:31: 1000000 INFO @ Mon, 29 Jun 2020 23:16:38: 2000000 INFO @ Mon, 29 Jun 2020 23:16:45: 3000000 INFO @ Mon, 29 Jun 2020 23:16:52: 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 23:16:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.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 23:16:54: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:16:54: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:16:59: 5000000 INFO @ Mon, 29 Jun 2020 23:17:01: 1000000 INFO @ Mon, 29 Jun 2020 23:17:07: 6000000 INFO @ Mon, 29 Jun 2020 23:17:08: 2000000 INFO @ Mon, 29 Jun 2020 23:17:14: 7000000 INFO @ Mon, 29 Jun 2020 23:17:15: 3000000 INFO @ Mon, 29 Jun 2020 23:17:22: 8000000 INFO @ Mon, 29 Jun 2020 23:17:22: 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 23:17:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.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 23:17:24: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:17:24: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:17:29: 5000000 INFO @ Mon, 29 Jun 2020 23:17:29: 9000000 INFO @ Mon, 29 Jun 2020 23:17:32: 1000000 INFO @ Mon, 29 Jun 2020 23:17:36: 6000000 INFO @ Mon, 29 Jun 2020 23:17:37: 10000000 INFO @ Mon, 29 Jun 2020 23:17:39: 2000000 INFO @ Mon, 29 Jun 2020 23:17:43: 7000000 INFO @ Mon, 29 Jun 2020 23:17:45: 11000000 INFO @ Mon, 29 Jun 2020 23:17:46: 3000000 INFO @ Mon, 29 Jun 2020 23:17:50: 8000000 INFO @ Mon, 29 Jun 2020 23:17:52: 12000000 INFO @ Mon, 29 Jun 2020 23:17:53: 4000000 INFO @ Mon, 29 Jun 2020 23:17:57: 9000000 INFO @ Mon, 29 Jun 2020 23:18:00: 5000000 INFO @ Mon, 29 Jun 2020 23:18:00: 13000000 INFO @ Mon, 29 Jun 2020 23:18:04: 10000000 INFO @ Mon, 29 Jun 2020 23:18:07: 6000000 INFO @ Mon, 29 Jun 2020 23:18:08: 14000000 INFO @ Mon, 29 Jun 2020 23:18:11: 11000000 INFO @ Mon, 29 Jun 2020 23:18:14: 7000000 INFO @ Mon, 29 Jun 2020 23:18:15: 15000000 INFO @ Mon, 29 Jun 2020 23:18:19: 12000000 INFO @ Mon, 29 Jun 2020 23:18:21: 8000000 INFO @ Mon, 29 Jun 2020 23:18:23: 16000000 INFO @ Mon, 29 Jun 2020 23:18:26: 13000000 INFO @ Mon, 29 Jun 2020 23:18:28: 9000000 INFO @ Mon, 29 Jun 2020 23:18:31: 17000000 INFO @ Mon, 29 Jun 2020 23:18:33: 14000000 INFO @ Mon, 29 Jun 2020 23:18:35: 10000000 INFO @ Mon, 29 Jun 2020 23:18:39: 18000000 INFO @ Mon, 29 Jun 2020 23:18:40: 15000000 INFO @ Mon, 29 Jun 2020 23:18:42: 11000000 INFO @ Mon, 29 Jun 2020 23:18:46: 19000000 INFO @ Mon, 29 Jun 2020 23:18:47: 16000000 INFO @ Mon, 29 Jun 2020 23:18:50: 12000000 INFO @ Mon, 29 Jun 2020 23:18:54: 20000000 INFO @ Mon, 29 Jun 2020 23:18:55: 17000000 INFO @ Mon, 29 Jun 2020 23:18:57: 13000000 INFO @ Mon, 29 Jun 2020 23:19:02: 18000000 INFO @ Mon, 29 Jun 2020 23:19:02: 21000000 INFO @ Mon, 29 Jun 2020 23:19:05: 14000000 INFO @ Mon, 29 Jun 2020 23:19:09: 19000000 INFO @ Mon, 29 Jun 2020 23:19:10: 22000000 INFO @ Mon, 29 Jun 2020 23:19:12: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:19:17: 20000000 INFO @ Mon, 29 Jun 2020 23:19:18: 23000000 INFO @ Mon, 29 Jun 2020 23:19:20: 16000000 INFO @ Mon, 29 Jun 2020 23:19:24: 21000000 INFO @ Mon, 29 Jun 2020 23:19:26: 24000000 INFO @ Mon, 29 Jun 2020 23:19:27: 17000000 INFO @ Mon, 29 Jun 2020 23:19:32: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 23:19:32: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 23:19:32: #1 total tags in treatment: 24748112 INFO @ Mon, 29 Jun 2020 23:19:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:19:32: #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 23:19:32: 22000000 INFO @ Mon, 29 Jun 2020 23:19:32: #1 tags after filtering in treatment: 24748112 INFO @ Mon, 29 Jun 2020 23:19:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:19:32: #1 finished! INFO @ Mon, 29 Jun 2020 23:19:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:19:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:19:34: #2 number of paired peaks: 71 WARNING @ Mon, 29 Jun 2020 23:19:34: Too few paired peaks (71) 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 23:19:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.05_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/SRX2325648/SRX2325648.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:19:34: 18000000 INFO @ Mon, 29 Jun 2020 23:19:39: 23000000 INFO @ Mon, 29 Jun 2020 23:19:41: 19000000 INFO @ Mon, 29 Jun 2020 23:19:46: 24000000 INFO @ Mon, 29 Jun 2020 23:19:49: 20000000 INFO @ Mon, 29 Jun 2020 23:19:51: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 23:19:51: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 23:19:51: #1 total tags in treatment: 24748112 INFO @ Mon, 29 Jun 2020 23:19:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:19:51: #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 23:19:51: #1 tags after filtering in treatment: 24748112 INFO @ Mon, 29 Jun 2020 23:19:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:19:51: #1 finished! INFO @ Mon, 29 Jun 2020 23:19:51: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:19:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:19:53: #2 number of paired peaks: 71 WARNING @ Mon, 29 Jun 2020 23:19:53: Too few paired peaks (71) 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 23:19:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.10_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/SRX2325648/SRX2325648.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:19:55: 21000000 INFO @ Mon, 29 Jun 2020 23:20:01: 22000000 INFO @ Mon, 29 Jun 2020 23:20:07: 23000000 INFO @ Mon, 29 Jun 2020 23:20:13: 24000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:20:18: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 23:20:18: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 23:20:18: #1 total tags in treatment: 24748112 INFO @ Mon, 29 Jun 2020 23:20:18: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:20:18: #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 23:20:18: #1 tags after filtering in treatment: 24748112 INFO @ Mon, 29 Jun 2020 23:20:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:20:18: #1 finished! INFO @ Mon, 29 Jun 2020 23:20:18: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:20:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:20:20: #2 number of paired peaks: 71 WARNING @ Mon, 29 Jun 2020 23:20:20: Too few paired peaks (71) 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 23:20:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.20_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/SRX2325648/SRX2325648.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325648/SRX2325648.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling