Job ID = 6527718 SRX = SRX245839 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:25:22 prefetch.2.10.7: 1) Downloading 'SRR765859'... 2020-06-29T13:25:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:28:10 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:28:10 prefetch.2.10.7: 1) 'SRR765859' was downloaded successfully Read 30453913 spots for SRR765859/SRR765859.sra Written 30453913 spots for SRR765859/SRR765859.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: 00:07:02 30453913 reads; of these: 30453913 (100.00%) were unpaired; of these: 1146885 (3.77%) aligned 0 times 23433949 (76.95%) aligned exactly 1 time 5873079 (19.29%) aligned >1 times 96.23% overall alignment rate Time searching: 00:07:02 Overall time: 00:07:02 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 8 files... [bam_rmdupse_core] 2517165 / 29307028 = 0.0859 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 22:50:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.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 22:50:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:50:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:50:06: 1000000 INFO @ Mon, 29 Jun 2020 22:50:12: 2000000 INFO @ Mon, 29 Jun 2020 22:50:18: 3000000 INFO @ Mon, 29 Jun 2020 22:50:24: 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 22:50:30: 5000000 INFO @ Mon, 29 Jun 2020 22:50:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.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 22:50:30: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:50:30: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:50:36: 1000000 INFO @ Mon, 29 Jun 2020 22:50:36: 6000000 INFO @ Mon, 29 Jun 2020 22:50:41: 2000000 INFO @ Mon, 29 Jun 2020 22:50:42: 7000000 INFO @ Mon, 29 Jun 2020 22:50:47: 3000000 INFO @ Mon, 29 Jun 2020 22:50:48: 8000000 INFO @ Mon, 29 Jun 2020 22:50:52: 4000000 INFO @ Mon, 29 Jun 2020 22:50:54: 9000000 INFO @ Mon, 29 Jun 2020 22:50:58: 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 22:51:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.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 22:51:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:51:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:51:01: 10000000 INFO @ Mon, 29 Jun 2020 22:51:03: 6000000 INFO @ Mon, 29 Jun 2020 22:51:06: 1000000 INFO @ Mon, 29 Jun 2020 22:51:07: 11000000 INFO @ Mon, 29 Jun 2020 22:51:09: 7000000 INFO @ Mon, 29 Jun 2020 22:51:11: 2000000 INFO @ Mon, 29 Jun 2020 22:51:13: 12000000 INFO @ Mon, 29 Jun 2020 22:51:15: 8000000 INFO @ Mon, 29 Jun 2020 22:51:17: 3000000 INFO @ Mon, 29 Jun 2020 22:51:19: 13000000 INFO @ Mon, 29 Jun 2020 22:51:20: 9000000 INFO @ Mon, 29 Jun 2020 22:51:23: 4000000 INFO @ Mon, 29 Jun 2020 22:51:25: 14000000 INFO @ Mon, 29 Jun 2020 22:51:26: 10000000 INFO @ Mon, 29 Jun 2020 22:51:29: 5000000 INFO @ Mon, 29 Jun 2020 22:51:31: 15000000 INFO @ Mon, 29 Jun 2020 22:51:32: 11000000 INFO @ Mon, 29 Jun 2020 22:51:34: 6000000 INFO @ Mon, 29 Jun 2020 22:51:37: 16000000 INFO @ Mon, 29 Jun 2020 22:51:37: 12000000 INFO @ Mon, 29 Jun 2020 22:51:40: 7000000 INFO @ Mon, 29 Jun 2020 22:51:43: 13000000 INFO @ Mon, 29 Jun 2020 22:51:44: 17000000 INFO @ Mon, 29 Jun 2020 22:51:46: 8000000 INFO @ Mon, 29 Jun 2020 22:51:49: 14000000 INFO @ Mon, 29 Jun 2020 22:51:50: 18000000 INFO @ Mon, 29 Jun 2020 22:51:51: 9000000 INFO @ Mon, 29 Jun 2020 22:51:54: 15000000 INFO @ Mon, 29 Jun 2020 22:51:56: 19000000 INFO @ Mon, 29 Jun 2020 22:51:57: 10000000 INFO @ Mon, 29 Jun 2020 22:52:00: 16000000 INFO @ Mon, 29 Jun 2020 22:52:02: 20000000 INFO @ Mon, 29 Jun 2020 22:52:03: 11000000 INFO @ Mon, 29 Jun 2020 22:52:05: 17000000 INFO @ Mon, 29 Jun 2020 22:52:08: 21000000 INFO @ Mon, 29 Jun 2020 22:52:08: 12000000 INFO @ Mon, 29 Jun 2020 22:52:11: 18000000 INFO @ Mon, 29 Jun 2020 22:52:14: 13000000 INFO @ Mon, 29 Jun 2020 22:52:14: 22000000 INFO @ Mon, 29 Jun 2020 22:52:16: 19000000 INFO @ Mon, 29 Jun 2020 22:52:20: 14000000 INFO @ Mon, 29 Jun 2020 22:52:20: 23000000 INFO @ Mon, 29 Jun 2020 22:52:22: 20000000 INFO @ Mon, 29 Jun 2020 22:52:25: 15000000 INFO @ Mon, 29 Jun 2020 22:52:27: 24000000 INFO @ Mon, 29 Jun 2020 22:52:28: 21000000 INFO @ Mon, 29 Jun 2020 22:52:31: 16000000 INFO @ Mon, 29 Jun 2020 22:52:33: 25000000 INFO @ Mon, 29 Jun 2020 22:52:33: 22000000 INFO @ Mon, 29 Jun 2020 22:52:37: 17000000 INFO @ Mon, 29 Jun 2020 22:52:39: 23000000 INFO @ Mon, 29 Jun 2020 22:52:39: 26000000 INFO @ Mon, 29 Jun 2020 22:52:42: 18000000 INFO @ Mon, 29 Jun 2020 22:52:44: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:52:44: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:52:44: #1 total tags in treatment: 26789863 INFO @ Mon, 29 Jun 2020 22:52:44: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:44: #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 22:52:44: 24000000 INFO @ Mon, 29 Jun 2020 22:52:44: #1 tags after filtering in treatment: 26789863 INFO @ Mon, 29 Jun 2020 22:52:44: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:44: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:44: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:52:46: #2 number of paired peaks: 2 WARNING @ Mon, 29 Jun 2020 22:52:46: Too few paired peaks (2) 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 22:52:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.05_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/SRX245839/SRX245839.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:52:48: 19000000 INFO @ Mon, 29 Jun 2020 22:52:49: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:52:53: 20000000 INFO @ Mon, 29 Jun 2020 22:52:55: 26000000 INFO @ Mon, 29 Jun 2020 22:52:59: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:52:59: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:52:59: #1 total tags in treatment: 26789863 INFO @ Mon, 29 Jun 2020 22:52:59: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:59: #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 22:52:59: 21000000 INFO @ Mon, 29 Jun 2020 22:52:59: #1 tags after filtering in treatment: 26789863 INFO @ Mon, 29 Jun 2020 22:52:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:59: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:59: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:53:01: #2 number of paired peaks: 2 WARNING @ Mon, 29 Jun 2020 22:53:01: Too few paired peaks (2) 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 22:53:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.10_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/SRX245839/SRX245839.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:53:04: 22000000 INFO @ Mon, 29 Jun 2020 22:53:09: 23000000 INFO @ Mon, 29 Jun 2020 22:53:14: 24000000 INFO @ Mon, 29 Jun 2020 22:53:19: 25000000 INFO @ Mon, 29 Jun 2020 22:53:24: 26000000 INFO @ Mon, 29 Jun 2020 22:53:28: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:53:28: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:53:28: #1 total tags in treatment: 26789863 INFO @ Mon, 29 Jun 2020 22:53:28: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:53:28: #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 22:53:28: #1 tags after filtering in treatment: 26789863 INFO @ Mon, 29 Jun 2020 22:53:28: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:53:28: #1 finished! INFO @ Mon, 29 Jun 2020 22:53:28: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:53:28: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:53:30: #2 number of paired peaks: 2 WARNING @ Mon, 29 Jun 2020 22:53:30: Too few paired peaks (2) 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 22:53:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.20_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/SRX245839/SRX245839.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245839/SRX245839.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。