Job ID = 6528154 SRX = SRX4828020 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:31:51 prefetch.2.10.7: 1) Downloading 'SRR7997156'... 2020-06-29T14:31:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:36:26 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:36:26 prefetch.2.10.7: 1) 'SRR7997156' was downloaded successfully 2020-06-29T14:36:26 prefetch.2.10.7: 'SRR7997156' has 0 unresolved dependencies Read 40815124 spots for SRR7997156/SRR7997156.sra Written 40815124 spots for SRR7997156/SRR7997156.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: 00:11:43 40815124 reads; of these: 40815124 (100.00%) were unpaired; of these: 1528575 (3.75%) aligned 0 times 31342650 (76.79%) aligned exactly 1 time 7943899 (19.46%) aligned >1 times 96.25% overall alignment rate Time searching: 00:11:43 Overall time: 00:11:43 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 16 files... [bam_rmdupse_core] 7333022 / 39286549 = 0.1867 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 @ Tue, 30 Jun 2020 00:05:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.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 @ Tue, 30 Jun 2020 00:05:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:05:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:05:30: 1000000 INFO @ Tue, 30 Jun 2020 00:05:36: 2000000 INFO @ Tue, 30 Jun 2020 00:05:42: 3000000 INFO @ Tue, 30 Jun 2020 00:05:47: 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 @ Tue, 30 Jun 2020 00:05:53: 5000000 INFO @ Tue, 30 Jun 2020 00:05:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.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 @ Tue, 30 Jun 2020 00:05:53: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:05:53: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:05:59: 6000000 INFO @ Tue, 30 Jun 2020 00:06:00: 1000000 INFO @ Tue, 30 Jun 2020 00:06:06: 7000000 INFO @ Tue, 30 Jun 2020 00:06:07: 2000000 INFO @ Tue, 30 Jun 2020 00:06:12: 8000000 INFO @ Tue, 30 Jun 2020 00:06:13: 3000000 INFO @ Tue, 30 Jun 2020 00:06:19: 9000000 INFO @ Tue, 30 Jun 2020 00:06:20: 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 @ Tue, 30 Jun 2020 00:06:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.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 @ Tue, 30 Jun 2020 00:06:23: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:06:23: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:06:25: 10000000 INFO @ Tue, 30 Jun 2020 00:06:26: 5000000 INFO @ Tue, 30 Jun 2020 00:06:30: 1000000 INFO @ Tue, 30 Jun 2020 00:06:32: 11000000 INFO @ Tue, 30 Jun 2020 00:06:33: 6000000 INFO @ Tue, 30 Jun 2020 00:06:37: 2000000 INFO @ Tue, 30 Jun 2020 00:06:39: 12000000 INFO @ Tue, 30 Jun 2020 00:06:40: 7000000 INFO @ Tue, 30 Jun 2020 00:06:43: 3000000 INFO @ Tue, 30 Jun 2020 00:06:45: 13000000 INFO @ Tue, 30 Jun 2020 00:06:46: 8000000 INFO @ Tue, 30 Jun 2020 00:06:50: 4000000 INFO @ Tue, 30 Jun 2020 00:06:52: 14000000 INFO @ Tue, 30 Jun 2020 00:06:53: 9000000 INFO @ Tue, 30 Jun 2020 00:06:57: 5000000 INFO @ Tue, 30 Jun 2020 00:06:59: 15000000 INFO @ Tue, 30 Jun 2020 00:07:00: 10000000 INFO @ Tue, 30 Jun 2020 00:07:03: 6000000 INFO @ Tue, 30 Jun 2020 00:07:05: 16000000 INFO @ Tue, 30 Jun 2020 00:07:06: 11000000 INFO @ Tue, 30 Jun 2020 00:07:10: 7000000 INFO @ Tue, 30 Jun 2020 00:07:12: 17000000 INFO @ Tue, 30 Jun 2020 00:07:13: 12000000 INFO @ Tue, 30 Jun 2020 00:07:17: 8000000 INFO @ Tue, 30 Jun 2020 00:07:19: 18000000 INFO @ Tue, 30 Jun 2020 00:07:20: 13000000 INFO @ Tue, 30 Jun 2020 00:07:24: 9000000 INFO @ Tue, 30 Jun 2020 00:07:26: 19000000 INFO @ Tue, 30 Jun 2020 00:07:27: 14000000 INFO @ Tue, 30 Jun 2020 00:07:31: 10000000 INFO @ Tue, 30 Jun 2020 00:07:33: 20000000 INFO @ Tue, 30 Jun 2020 00:07:34: 15000000 INFO @ Tue, 30 Jun 2020 00:07:38: 11000000 INFO @ Tue, 30 Jun 2020 00:07:40: 21000000 INFO @ Tue, 30 Jun 2020 00:07:41: 16000000 INFO @ Tue, 30 Jun 2020 00:07:45: 12000000 INFO @ Tue, 30 Jun 2020 00:07:48: 22000000 INFO @ Tue, 30 Jun 2020 00:07:48: 17000000 INFO @ Tue, 30 Jun 2020 00:07:52: 13000000 INFO @ Tue, 30 Jun 2020 00:07:55: 23000000 INFO @ Tue, 30 Jun 2020 00:07:56: 18000000 INFO @ Tue, 30 Jun 2020 00:07:59: 14000000 INFO @ Tue, 30 Jun 2020 00:08:02: 24000000 INFO @ Tue, 30 Jun 2020 00:08:03: 19000000 INFO @ Tue, 30 Jun 2020 00:08:06: 15000000 INFO @ Tue, 30 Jun 2020 00:08:09: 25000000 INFO @ Tue, 30 Jun 2020 00:08:10: 20000000 INFO @ Tue, 30 Jun 2020 00:08:13: 16000000 INFO @ Tue, 30 Jun 2020 00:08:16: 26000000 INFO @ Tue, 30 Jun 2020 00:08:16: 21000000 INFO @ Tue, 30 Jun 2020 00:08:20: 17000000 INFO @ Tue, 30 Jun 2020 00:08:23: 27000000 INFO @ Tue, 30 Jun 2020 00:08:23: 22000000 INFO @ Tue, 30 Jun 2020 00:08:27: 18000000 INFO @ Tue, 30 Jun 2020 00:08:30: 28000000 INFO @ Tue, 30 Jun 2020 00:08:30: 23000000 INFO @ Tue, 30 Jun 2020 00:08:34: 19000000 INFO @ Tue, 30 Jun 2020 00:08:37: 29000000 INFO @ Tue, 30 Jun 2020 00:08:37: 24000000 INFO @ Tue, 30 Jun 2020 00:08:41: 20000000 INFO @ Tue, 30 Jun 2020 00:08:44: 30000000 INFO @ Tue, 30 Jun 2020 00:08:44: 25000000 INFO @ Tue, 30 Jun 2020 00:08:48: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:08:51: 31000000 INFO @ Tue, 30 Jun 2020 00:08:51: 26000000 INFO @ Tue, 30 Jun 2020 00:08:55: 22000000 INFO @ Tue, 30 Jun 2020 00:08:58: #1 tag size is determined as 49 bps INFO @ Tue, 30 Jun 2020 00:08:58: #1 tag size = 49 INFO @ Tue, 30 Jun 2020 00:08:58: #1 total tags in treatment: 31953527 INFO @ Tue, 30 Jun 2020 00:08:58: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:08:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:08:58: #1 tags after filtering in treatment: 31953527 INFO @ Tue, 30 Jun 2020 00:08:58: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:08:58: #1 finished! INFO @ Tue, 30 Jun 2020 00:08:58: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:08:58: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:08:59: 27000000 INFO @ Tue, 30 Jun 2020 00:09:00: #2 number of paired peaks: 32 WARNING @ Tue, 30 Jun 2020 00:09:00: Too few paired peaks (32) 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 @ Tue, 30 Jun 2020 00:09:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.05_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/SRX4828020/SRX4828020.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:09:02: 23000000 INFO @ Tue, 30 Jun 2020 00:09:05: 28000000 INFO @ Tue, 30 Jun 2020 00:09:09: 24000000 INFO @ Tue, 30 Jun 2020 00:09:12: 29000000 INFO @ Tue, 30 Jun 2020 00:09:16: 25000000 INFO @ Tue, 30 Jun 2020 00:09:19: 30000000 INFO @ Tue, 30 Jun 2020 00:09:23: 26000000 INFO @ Tue, 30 Jun 2020 00:09:26: 31000000 INFO @ Tue, 30 Jun 2020 00:09:30: 27000000 INFO @ Tue, 30 Jun 2020 00:09:33: #1 tag size is determined as 49 bps INFO @ Tue, 30 Jun 2020 00:09:33: #1 tag size = 49 INFO @ Tue, 30 Jun 2020 00:09:33: #1 total tags in treatment: 31953527 INFO @ Tue, 30 Jun 2020 00:09:33: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:09:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:09:33: #1 tags after filtering in treatment: 31953527 INFO @ Tue, 30 Jun 2020 00:09:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:09:33: #1 finished! INFO @ Tue, 30 Jun 2020 00:09:33: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:09:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:09:35: #2 number of paired peaks: 32 WARNING @ Tue, 30 Jun 2020 00:09:35: Too few paired peaks (32) 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 @ Tue, 30 Jun 2020 00:09:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.10_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/SRX4828020/SRX4828020.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:09:36: 28000000 INFO @ Tue, 30 Jun 2020 00:09:43: 29000000 INFO @ Tue, 30 Jun 2020 00:09:49: 30000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:09:55: 31000000 INFO @ Tue, 30 Jun 2020 00:10:01: #1 tag size is determined as 49 bps INFO @ Tue, 30 Jun 2020 00:10:01: #1 tag size = 49 INFO @ Tue, 30 Jun 2020 00:10:01: #1 total tags in treatment: 31953527 INFO @ Tue, 30 Jun 2020 00:10:01: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:10:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:10:02: #1 tags after filtering in treatment: 31953527 INFO @ Tue, 30 Jun 2020 00:10:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:10:02: #1 finished! INFO @ Tue, 30 Jun 2020 00:10:02: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:10:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:10:04: #2 number of paired peaks: 32 WARNING @ Tue, 30 Jun 2020 00:10:04: Too few paired peaks (32) 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 @ Tue, 30 Jun 2020 00:10:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.20_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/SRX4828020/SRX4828020.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4828020/SRX4828020.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling