Job ID = 6527697 SRX = SRX2325643 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:10:56 prefetch.2.10.7: 1) Downloading 'SRR4896331'... 2020-06-29T13:10:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:13:20 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:13:20 prefetch.2.10.7: 1) 'SRR4896331' was downloaded successfully 2020-06-29T13:13:20 prefetch.2.10.7: 'SRR4896331' has 0 unresolved dependencies Read 23836027 spots for SRR4896331/SRR4896331.sra Written 23836027 spots for SRR4896331/SRR4896331.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: 00:09:00 23836027 reads; of these: 23836027 (100.00%) were unpaired; of these: 1647576 (6.91%) aligned 0 times 18304100 (76.79%) aligned exactly 1 time 3884351 (16.30%) aligned >1 times 93.09% overall alignment rate Time searching: 00:09:00 Overall time: 00:09:00 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] 2748159 / 22188451 = 0.1239 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 22:37:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.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 22:37:31: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:37:31: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:37:39: 1000000 INFO @ Mon, 29 Jun 2020 22:37:47: 2000000 INFO @ Mon, 29 Jun 2020 22:37:54: 3000000 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 22:38:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.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 22:38:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:38:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:38:01: 4000000 INFO @ Mon, 29 Jun 2020 22:38:07: 1000000 INFO @ Mon, 29 Jun 2020 22:38:09: 5000000 INFO @ Mon, 29 Jun 2020 22:38:14: 2000000 INFO @ Mon, 29 Jun 2020 22:38:17: 6000000 INFO @ Mon, 29 Jun 2020 22:38:22: 3000000 INFO @ Mon, 29 Jun 2020 22:38:24: 7000000 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 22:38:29: 4000000 INFO @ Mon, 29 Jun 2020 22:38:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.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 22:38:30: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:38:30: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:38:32: 8000000 INFO @ Mon, 29 Jun 2020 22:38:36: 5000000 INFO @ Mon, 29 Jun 2020 22:38:37: 1000000 INFO @ Mon, 29 Jun 2020 22:38:40: 9000000 INFO @ Mon, 29 Jun 2020 22:38:43: 6000000 INFO @ Mon, 29 Jun 2020 22:38:45: 2000000 INFO @ Mon, 29 Jun 2020 22:38:48: 10000000 INFO @ Mon, 29 Jun 2020 22:38:50: 7000000 INFO @ Mon, 29 Jun 2020 22:38:52: 3000000 INFO @ Mon, 29 Jun 2020 22:38:56: 11000000 INFO @ Mon, 29 Jun 2020 22:38:57: 8000000 INFO @ Mon, 29 Jun 2020 22:38:59: 4000000 INFO @ Mon, 29 Jun 2020 22:39:04: 12000000 INFO @ Mon, 29 Jun 2020 22:39:05: 9000000 INFO @ Mon, 29 Jun 2020 22:39:07: 5000000 INFO @ Mon, 29 Jun 2020 22:39:12: 13000000 INFO @ Mon, 29 Jun 2020 22:39:12: 10000000 INFO @ Mon, 29 Jun 2020 22:39:14: 6000000 INFO @ Mon, 29 Jun 2020 22:39:20: 14000000 INFO @ Mon, 29 Jun 2020 22:39:20: 11000000 INFO @ Mon, 29 Jun 2020 22:39:22: 7000000 INFO @ Mon, 29 Jun 2020 22:39:27: 12000000 INFO @ Mon, 29 Jun 2020 22:39:27: 15000000 INFO @ Mon, 29 Jun 2020 22:39:29: 8000000 INFO @ Mon, 29 Jun 2020 22:39:35: 13000000 INFO @ Mon, 29 Jun 2020 22:39:35: 16000000 INFO @ Mon, 29 Jun 2020 22:39:37: 9000000 INFO @ Mon, 29 Jun 2020 22:39:42: 14000000 INFO @ Mon, 29 Jun 2020 22:39:43: 17000000 INFO @ Mon, 29 Jun 2020 22:39:44: 10000000 INFO @ Mon, 29 Jun 2020 22:39:49: 15000000 INFO @ Mon, 29 Jun 2020 22:39:51: 11000000 INFO @ Mon, 29 Jun 2020 22:39:51: 18000000 INFO @ Mon, 29 Jun 2020 22:39:57: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:39:59: 12000000 INFO @ Mon, 29 Jun 2020 22:39:59: 19000000 INFO @ Mon, 29 Jun 2020 22:40:03: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:40:03: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:40:03: #1 total tags in treatment: 19440292 INFO @ Mon, 29 Jun 2020 22:40:03: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:40:03: #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 22:40:03: #1 tags after filtering in treatment: 19440292 INFO @ Mon, 29 Jun 2020 22:40:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:40:03: #1 finished! INFO @ Mon, 29 Jun 2020 22:40:03: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:40:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:40:04: 17000000 INFO @ Mon, 29 Jun 2020 22:40:04: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 22:40:04: Too few paired peaks (39) 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 22:40:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:40:06: 13000000 INFO @ Mon, 29 Jun 2020 22:40:11: 18000000 INFO @ Mon, 29 Jun 2020 22:40:13: 14000000 INFO @ Mon, 29 Jun 2020 22:40:18: 19000000 INFO @ Mon, 29 Jun 2020 22:40:20: 15000000 INFO @ Mon, 29 Jun 2020 22:40:21: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:40:21: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:40:21: #1 total tags in treatment: 19440292 INFO @ Mon, 29 Jun 2020 22:40:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:40:21: #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 22:40:22: #1 tags after filtering in treatment: 19440292 INFO @ Mon, 29 Jun 2020 22:40:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:40:22: #1 finished! INFO @ Mon, 29 Jun 2020 22:40:22: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:40:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:40:23: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 22:40:23: Too few paired peaks (39) 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 22:40:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.10_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/SRX2325643/SRX2325643.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:40:26: 16000000 INFO @ Mon, 29 Jun 2020 22:40:33: 17000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 22:40:40: 18000000 INFO @ Mon, 29 Jun 2020 22:40:46: 19000000 INFO @ Mon, 29 Jun 2020 22:40:49: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:40:49: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:40:49: #1 total tags in treatment: 19440292 INFO @ Mon, 29 Jun 2020 22:40:49: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:40:49: #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 22:40:49: #1 tags after filtering in treatment: 19440292 INFO @ Mon, 29 Jun 2020 22:40:49: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:40:49: #1 finished! INFO @ Mon, 29 Jun 2020 22:40:49: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:40:49: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:40:51: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 22:40:51: Too few paired peaks (39) 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 22:40:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.20_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/SRX2325643/SRX2325643.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325643/SRX2325643.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling