Job ID = 6527526 SRX = SRX1032405 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:44:06 prefetch.2.10.7: 1) Downloading 'SRR2031906'... 2020-06-29T12:44:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:46:07 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:46:07 prefetch.2.10.7: 1) 'SRR2031906' was downloaded successfully Read 27744920 spots for SRR2031906/SRR2031906.sra Written 27744920 spots for SRR2031906/SRR2031906.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: 00:09:12 27744920 reads; of these: 27744920 (100.00%) were unpaired; of these: 566248 (2.04%) aligned 0 times 20149713 (72.62%) aligned exactly 1 time 7028959 (25.33%) aligned >1 times 97.96% overall alignment rate Time searching: 00:09:12 Overall time: 00:09:12 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] 2692350 / 27178672 = 0.0991 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 22:09:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.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 22:09:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:09:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:09:10: 1000000 INFO @ Mon, 29 Jun 2020 22:09:16: 2000000 INFO @ Mon, 29 Jun 2020 22:09:21: 3000000 INFO @ Mon, 29 Jun 2020 22:09:26: 4000000 INFO @ Mon, 29 Jun 2020 22:09:32: 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 22:09:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.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 22:09:35: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:09:35: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:09:37: 6000000 INFO @ Mon, 29 Jun 2020 22:09:40: 1000000 INFO @ Mon, 29 Jun 2020 22:09:43: 7000000 INFO @ Mon, 29 Jun 2020 22:09:45: 2000000 INFO @ Mon, 29 Jun 2020 22:09:48: 8000000 INFO @ Mon, 29 Jun 2020 22:09:50: 3000000 INFO @ Mon, 29 Jun 2020 22:09:53: 9000000 INFO @ Mon, 29 Jun 2020 22:09:55: 4000000 INFO @ Mon, 29 Jun 2020 22:09:59: 10000000 INFO @ Mon, 29 Jun 2020 22:09:59: 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 22:10:04: 6000000 INFO @ Mon, 29 Jun 2020 22:10:04: 11000000 INFO @ Mon, 29 Jun 2020 22:10:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.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 22:10:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:10:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:10:09: 7000000 INFO @ Mon, 29 Jun 2020 22:10:10: 1000000 INFO @ Mon, 29 Jun 2020 22:10:10: 12000000 INFO @ Mon, 29 Jun 2020 22:10:14: 8000000 INFO @ Mon, 29 Jun 2020 22:10:15: 2000000 INFO @ Mon, 29 Jun 2020 22:10:16: 13000000 INFO @ Mon, 29 Jun 2020 22:10:19: 9000000 INFO @ Mon, 29 Jun 2020 22:10:20: 3000000 INFO @ Mon, 29 Jun 2020 22:10:22: 14000000 INFO @ Mon, 29 Jun 2020 22:10:24: 10000000 INFO @ Mon, 29 Jun 2020 22:10:24: 4000000 INFO @ Mon, 29 Jun 2020 22:10:27: 15000000 INFO @ Mon, 29 Jun 2020 22:10:29: 11000000 INFO @ Mon, 29 Jun 2020 22:10:29: 5000000 INFO @ Mon, 29 Jun 2020 22:10:33: 16000000 INFO @ Mon, 29 Jun 2020 22:10:33: 12000000 INFO @ Mon, 29 Jun 2020 22:10:34: 6000000 INFO @ Mon, 29 Jun 2020 22:10:38: 13000000 INFO @ Mon, 29 Jun 2020 22:10:38: 17000000 INFO @ Mon, 29 Jun 2020 22:10:39: 7000000 INFO @ Mon, 29 Jun 2020 22:10:43: 14000000 INFO @ Mon, 29 Jun 2020 22:10:44: 8000000 INFO @ Mon, 29 Jun 2020 22:10:45: 18000000 INFO @ Mon, 29 Jun 2020 22:10:48: 15000000 INFO @ Mon, 29 Jun 2020 22:10:49: 9000000 INFO @ Mon, 29 Jun 2020 22:10:51: 19000000 INFO @ Mon, 29 Jun 2020 22:10:53: 16000000 INFO @ Mon, 29 Jun 2020 22:10:54: 10000000 INFO @ Mon, 29 Jun 2020 22:10:56: 20000000 INFO @ Mon, 29 Jun 2020 22:10:57: 17000000 INFO @ Mon, 29 Jun 2020 22:10:58: 11000000 INFO @ Mon, 29 Jun 2020 22:11:02: 21000000 INFO @ Mon, 29 Jun 2020 22:11:02: 18000000 INFO @ Mon, 29 Jun 2020 22:11:03: 12000000 INFO @ Mon, 29 Jun 2020 22:11:07: 19000000 INFO @ Mon, 29 Jun 2020 22:11:08: 13000000 INFO @ Mon, 29 Jun 2020 22:11:08: 22000000 INFO @ Mon, 29 Jun 2020 22:11:12: 20000000 INFO @ Mon, 29 Jun 2020 22:11:13: 14000000 INFO @ Mon, 29 Jun 2020 22:11:14: 23000000 INFO @ Mon, 29 Jun 2020 22:11:17: 21000000 INFO @ Mon, 29 Jun 2020 22:11:18: 15000000 INFO @ Mon, 29 Jun 2020 22:11:20: 24000000 INFO @ Mon, 29 Jun 2020 22:11:22: 22000000 INFO @ Mon, 29 Jun 2020 22:11:23: 16000000 INFO @ Mon, 29 Jun 2020 22:11:23: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:11:23: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:11:23: #1 total tags in treatment: 24486322 INFO @ Mon, 29 Jun 2020 22:11:23: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:11:23: #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 22:11:24: #1 tags after filtering in treatment: 24486322 INFO @ Mon, 29 Jun 2020 22:11:24: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:11:24: #1 finished! INFO @ Mon, 29 Jun 2020 22:11:24: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:11:24: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:11:25: #2 number of paired peaks: 49 WARNING @ Mon, 29 Jun 2020 22:11:25: Too few paired peaks (49) 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 22:11:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.05_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/SRX1032405/SRX1032405.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:11:27: 23000000 INFO @ Mon, 29 Jun 2020 22:11:27: 17000000 INFO @ Mon, 29 Jun 2020 22:11:32: 24000000 INFO @ Mon, 29 Jun 2020 22:11:32: 18000000 INFO @ Mon, 29 Jun 2020 22:11:35: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:11:35: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:11:35: #1 total tags in treatment: 24486322 INFO @ Mon, 29 Jun 2020 22:11:35: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:11:35: #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 22:11:35: #1 tags after filtering in treatment: 24486322 INFO @ Mon, 29 Jun 2020 22:11:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:11:35: #1 finished! INFO @ Mon, 29 Jun 2020 22:11:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:11:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:11:36: #2 number of paired peaks: 49 WARNING @ Mon, 29 Jun 2020 22:11:36: Too few paired peaks (49) 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 22:11:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.10_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/SRX1032405/SRX1032405.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:11:37: 19000000 INFO @ Mon, 29 Jun 2020 22:11:42: 20000000 INFO @ Mon, 29 Jun 2020 22:11:47: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:11:51: 22000000 INFO @ Mon, 29 Jun 2020 22:11:56: 23000000 INFO @ Mon, 29 Jun 2020 22:12:01: 24000000 INFO @ Mon, 29 Jun 2020 22:12:03: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:12:03: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:12:03: #1 total tags in treatment: 24486322 INFO @ Mon, 29 Jun 2020 22:12:03: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:12:03: #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 22:12:04: #1 tags after filtering in treatment: 24486322 INFO @ Mon, 29 Jun 2020 22:12:04: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:12:04: #1 finished! INFO @ Mon, 29 Jun 2020 22:12:04: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:12:04: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:12:05: #2 number of paired peaks: 49 WARNING @ Mon, 29 Jun 2020 22:12:05: Too few paired peaks (49) 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 22:12:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.20_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/SRX1032405/SRX1032405.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1032405/SRX1032405.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。