Job ID = 6528321 SRX = SRX5343142 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:02:16 prefetch.2.10.7: 1) Downloading 'SRR8540842'... 2020-06-29T15:02:16 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:05:11 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:05:11 prefetch.2.10.7: 1) 'SRR8540842' was downloaded successfully 2020-06-29T15:05:11 prefetch.2.10.7: 'SRR8540842' has 0 unresolved dependencies Read 25511936 spots for SRR8540842/SRR8540842.sra Written 25511936 spots for SRR8540842/SRR8540842.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: 00:07:52 25511936 reads; of these: 25511936 (100.00%) were unpaired; of these: 1081893 (4.24%) aligned 0 times 20844103 (81.70%) aligned exactly 1 time 3585940 (14.06%) aligned >1 times 95.76% overall alignment rate Time searching: 00:07:52 Overall time: 00:07:52 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] 2378291 / 24430043 = 0.0974 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 00:30:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.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 00:30:55: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:30:55: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:31:00: 1000000 INFO @ Tue, 30 Jun 2020 00:31:05: 2000000 INFO @ Tue, 30 Jun 2020 00:31:10: 3000000 INFO @ Tue, 30 Jun 2020 00:31:15: 4000000 INFO @ Tue, 30 Jun 2020 00:31:20: 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 @ Tue, 30 Jun 2020 00:31:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.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 00:31:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:31:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:31:25: 6000000 INFO @ Tue, 30 Jun 2020 00:31:30: 1000000 INFO @ Tue, 30 Jun 2020 00:31:30: 7000000 INFO @ Tue, 30 Jun 2020 00:31:35: 2000000 INFO @ Tue, 30 Jun 2020 00:31:35: 8000000 INFO @ Tue, 30 Jun 2020 00:31:40: 3000000 INFO @ Tue, 30 Jun 2020 00:31:40: 9000000 INFO @ Tue, 30 Jun 2020 00:31:45: 4000000 INFO @ Tue, 30 Jun 2020 00:31:45: 10000000 INFO @ Tue, 30 Jun 2020 00:31:50: 5000000 INFO @ Tue, 30 Jun 2020 00:31:51: 11000000 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 00:31:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.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 00:31:55: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:31:55: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:31:55: 6000000 INFO @ Tue, 30 Jun 2020 00:31:56: 12000000 INFO @ Tue, 30 Jun 2020 00:32:00: 1000000 INFO @ Tue, 30 Jun 2020 00:32:00: 7000000 INFO @ Tue, 30 Jun 2020 00:32:01: 13000000 INFO @ Tue, 30 Jun 2020 00:32:05: 8000000 INFO @ Tue, 30 Jun 2020 00:32:05: 2000000 INFO @ Tue, 30 Jun 2020 00:32:06: 14000000 INFO @ Tue, 30 Jun 2020 00:32:11: 9000000 INFO @ Tue, 30 Jun 2020 00:32:11: 3000000 INFO @ Tue, 30 Jun 2020 00:32:11: 15000000 INFO @ Tue, 30 Jun 2020 00:32:16: 10000000 INFO @ Tue, 30 Jun 2020 00:32:16: 4000000 INFO @ Tue, 30 Jun 2020 00:32:16: 16000000 INFO @ Tue, 30 Jun 2020 00:32:21: 11000000 INFO @ Tue, 30 Jun 2020 00:32:21: 17000000 INFO @ Tue, 30 Jun 2020 00:32:21: 5000000 INFO @ Tue, 30 Jun 2020 00:32:26: 18000000 INFO @ Tue, 30 Jun 2020 00:32:26: 12000000 INFO @ Tue, 30 Jun 2020 00:32:26: 6000000 INFO @ Tue, 30 Jun 2020 00:32:31: 19000000 INFO @ Tue, 30 Jun 2020 00:32:31: 13000000 INFO @ Tue, 30 Jun 2020 00:32:31: 7000000 INFO @ Tue, 30 Jun 2020 00:32:36: 20000000 INFO @ Tue, 30 Jun 2020 00:32:36: 14000000 INFO @ Tue, 30 Jun 2020 00:32:37: 8000000 INFO @ Tue, 30 Jun 2020 00:32:41: 21000000 INFO @ Tue, 30 Jun 2020 00:32:42: 15000000 INFO @ Tue, 30 Jun 2020 00:32:42: 9000000 INFO @ Tue, 30 Jun 2020 00:32:46: 22000000 INFO @ Tue, 30 Jun 2020 00:32:47: 16000000 INFO @ Tue, 30 Jun 2020 00:32:47: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:32:47: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:32:47: #1 total tags in treatment: 22051752 INFO @ Tue, 30 Jun 2020 00:32:47: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:32:47: #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 00:32:47: 10000000 INFO @ Tue, 30 Jun 2020 00:32:47: #1 tags after filtering in treatment: 22051752 INFO @ Tue, 30 Jun 2020 00:32:47: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:32:47: #1 finished! INFO @ Tue, 30 Jun 2020 00:32:47: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:32:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:32:48: #2 number of paired peaks: 53 WARNING @ Tue, 30 Jun 2020 00:32:48: Too few paired peaks (53) 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 00:32:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.05_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/SRX5343142/SRX5343142.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:32:52: 17000000 INFO @ Tue, 30 Jun 2020 00:32:52: 11000000 INFO @ Tue, 30 Jun 2020 00:32:57: 18000000 INFO @ Tue, 30 Jun 2020 00:32:57: 12000000 INFO @ Tue, 30 Jun 2020 00:33:02: 19000000 INFO @ Tue, 30 Jun 2020 00:33:02: 13000000 INFO @ Tue, 30 Jun 2020 00:33:07: 20000000 INFO @ Tue, 30 Jun 2020 00:33:07: 14000000 INFO @ Tue, 30 Jun 2020 00:33:12: 21000000 INFO @ Tue, 30 Jun 2020 00:33:12: 15000000 INFO @ Tue, 30 Jun 2020 00:33:17: 22000000 INFO @ Tue, 30 Jun 2020 00:33:17: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:33:17: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:33:17: #1 total tags in treatment: 22051752 INFO @ Tue, 30 Jun 2020 00:33:17: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:33:17: #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 00:33:17: 16000000 INFO @ Tue, 30 Jun 2020 00:33:18: #1 tags after filtering in treatment: 22051752 INFO @ Tue, 30 Jun 2020 00:33:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:33:18: #1 finished! INFO @ Tue, 30 Jun 2020 00:33:18: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:33:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:33:19: #2 number of paired peaks: 53 WARNING @ Tue, 30 Jun 2020 00:33:19: Too few paired peaks (53) 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 00:33:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.10_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/SRX5343142/SRX5343142.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:33:22: 17000000 INFO @ Tue, 30 Jun 2020 00:33:27: 18000000 INFO @ Tue, 30 Jun 2020 00:33:32: 19000000 INFO @ Tue, 30 Jun 2020 00:33:37: 20000000 INFO @ Tue, 30 Jun 2020 00:33:42: 21000000 INFO @ Tue, 30 Jun 2020 00:33:47: 22000000 INFO @ Tue, 30 Jun 2020 00:33:47: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:33:47: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:33:47: #1 total tags in treatment: 22051752 INFO @ Tue, 30 Jun 2020 00:33:47: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:33:47: #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 00:33:48: #1 tags after filtering in treatment: 22051752 INFO @ Tue, 30 Jun 2020 00:33:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:33:48: #1 finished! INFO @ Tue, 30 Jun 2020 00:33:48: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:33:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:33:49: #2 number of paired peaks: 53 WARNING @ Tue, 30 Jun 2020 00:33:49: Too few paired peaks (53) 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 00:33:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.20_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/SRX5343142/SRX5343142.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343142/SRX5343142.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。