Job ID = 6528104 SRX = SRX4669037 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:30:21 prefetch.2.10.7: 1) Downloading 'SRR7817562'... 2020-06-29T14:30:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:33:02 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:33:03 prefetch.2.10.7: 'SRR7817562' is valid 2020-06-29T14:33:03 prefetch.2.10.7: 1) 'SRR7817562' was downloaded successfully 2020-06-29T14:33:03 prefetch.2.10.7: 'SRR7817562' has 0 unresolved dependencies Read 24849410 spots for SRR7817562/SRR7817562.sra Written 24849410 spots for SRR7817562/SRR7817562.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: 00:08:18 24849410 reads; of these: 24849410 (100.00%) were unpaired; of these: 696937 (2.80%) aligned 0 times 16822110 (67.70%) aligned exactly 1 time 7330363 (29.50%) aligned >1 times 97.20% overall alignment rate Time searching: 00:08:18 Overall time: 00:08:18 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] 3605223 / 24152473 = 0.1493 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 23:54:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.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 23:54:19: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:54:19: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:54:24: 1000000 INFO @ Mon, 29 Jun 2020 23:54:29: 2000000 INFO @ Mon, 29 Jun 2020 23:54:34: 3000000 INFO @ Mon, 29 Jun 2020 23:54:40: 4000000 INFO @ Mon, 29 Jun 2020 23:54:45: 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 23:54:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.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 23:54:49: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:54:49: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:54:51: 6000000 INFO @ Mon, 29 Jun 2020 23:54:56: 1000000 INFO @ Mon, 29 Jun 2020 23:54:57: 7000000 INFO @ Mon, 29 Jun 2020 23:55:03: 2000000 INFO @ Mon, 29 Jun 2020 23:55:04: 8000000 INFO @ Mon, 29 Jun 2020 23:55:10: 3000000 INFO @ Mon, 29 Jun 2020 23:55:10: 9000000 INFO @ Mon, 29 Jun 2020 23:55:17: 4000000 INFO @ Mon, 29 Jun 2020 23:55:17: 10000000 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 23:55:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.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 23:55:19: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:55:19: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:55:23: 11000000 INFO @ Mon, 29 Jun 2020 23:55:24: 5000000 INFO @ Mon, 29 Jun 2020 23:55:25: 1000000 INFO @ Mon, 29 Jun 2020 23:55:30: 12000000 INFO @ Mon, 29 Jun 2020 23:55:30: 6000000 INFO @ Mon, 29 Jun 2020 23:55:32: 2000000 INFO @ Mon, 29 Jun 2020 23:55:36: 13000000 INFO @ Mon, 29 Jun 2020 23:55:37: 7000000 INFO @ Mon, 29 Jun 2020 23:55:38: 3000000 INFO @ Mon, 29 Jun 2020 23:55:43: 14000000 INFO @ Mon, 29 Jun 2020 23:55:44: 8000000 INFO @ Mon, 29 Jun 2020 23:55:45: 4000000 INFO @ Mon, 29 Jun 2020 23:55:50: 15000000 INFO @ Mon, 29 Jun 2020 23:55:51: 9000000 INFO @ Mon, 29 Jun 2020 23:55:52: 5000000 INFO @ Mon, 29 Jun 2020 23:55:56: 16000000 INFO @ Mon, 29 Jun 2020 23:55:58: 10000000 INFO @ Mon, 29 Jun 2020 23:55:58: 6000000 INFO @ Mon, 29 Jun 2020 23:56:03: 17000000 INFO @ Mon, 29 Jun 2020 23:56:05: 7000000 INFO @ Mon, 29 Jun 2020 23:56:05: 11000000 INFO @ Mon, 29 Jun 2020 23:56:09: 18000000 INFO @ Mon, 29 Jun 2020 23:56:11: 8000000 INFO @ Mon, 29 Jun 2020 23:56:12: 12000000 INFO @ Mon, 29 Jun 2020 23:56:16: 19000000 INFO @ Mon, 29 Jun 2020 23:56:18: 9000000 INFO @ Mon, 29 Jun 2020 23:56:19: 13000000 INFO @ Mon, 29 Jun 2020 23:56:22: 20000000 INFO @ Mon, 29 Jun 2020 23:56:24: 10000000 INFO @ Mon, 29 Jun 2020 23:56:25: 14000000 INFO @ Mon, 29 Jun 2020 23:56:26: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:56:26: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:56:26: #1 total tags in treatment: 20547250 INFO @ Mon, 29 Jun 2020 23:56:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:56:26: #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 23:56:26: #1 tags after filtering in treatment: 20547250 INFO @ Mon, 29 Jun 2020 23:56:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:56:26: #1 finished! INFO @ Mon, 29 Jun 2020 23:56:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:56:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:56:28: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 23:56:28: Too few paired peaks (50) 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 23:56:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.05_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/SRX4669037/SRX4669037.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:56:31: 11000000 INFO @ Mon, 29 Jun 2020 23:56:32: 15000000 INFO @ Mon, 29 Jun 2020 23:56:37: 12000000 INFO @ Mon, 29 Jun 2020 23:56:39: 16000000 INFO @ Mon, 29 Jun 2020 23:56:44: 13000000 INFO @ Mon, 29 Jun 2020 23:56:46: 17000000 INFO @ Mon, 29 Jun 2020 23:56:50: 14000000 INFO @ Mon, 29 Jun 2020 23:56:53: 18000000 INFO @ Mon, 29 Jun 2020 23:56:57: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:57:00: 19000000 INFO @ Mon, 29 Jun 2020 23:57:03: 16000000 INFO @ Mon, 29 Jun 2020 23:57:07: 20000000 INFO @ Mon, 29 Jun 2020 23:57:10: 17000000 INFO @ Mon, 29 Jun 2020 23:57:10: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:57:10: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:57:10: #1 total tags in treatment: 20547250 INFO @ Mon, 29 Jun 2020 23:57:10: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:57:10: #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 23:57:11: #1 tags after filtering in treatment: 20547250 INFO @ Mon, 29 Jun 2020 23:57:11: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:57:11: #1 finished! INFO @ Mon, 29 Jun 2020 23:57:11: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:57:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:57:12: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 23:57:12: Too few paired peaks (50) 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 23:57:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.10_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/SRX4669037/SRX4669037.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:57:16: 18000000 INFO @ Mon, 29 Jun 2020 23:57:22: 19000000 INFO @ Mon, 29 Jun 2020 23:57:28: 20000000 INFO @ Mon, 29 Jun 2020 23:57:31: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:57:31: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:57:31: #1 total tags in treatment: 20547250 INFO @ Mon, 29 Jun 2020 23:57:31: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:57:31: #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 23:57:32: #1 tags after filtering in treatment: 20547250 INFO @ Mon, 29 Jun 2020 23:57:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:57:32: #1 finished! INFO @ Mon, 29 Jun 2020 23:57:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:57:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:57:33: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 23:57:33: Too few paired peaks (50) 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 23:57:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.20_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/SRX4669037/SRX4669037.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669037/SRX4669037.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。