Job ID = 6528284 SRX = SRX5241027 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:38:06 prefetch.2.10.7: 1) Downloading 'SRR8433308'... 2020-06-29T14:38:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:40:44 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:40:44 prefetch.2.10.7: 1) 'SRR8433308' was downloaded successfully 2020-06-29T14:40:44 prefetch.2.10.7: 'SRR8433308' has 0 unresolved dependencies Read 21898618 spots for SRR8433308/SRR8433308.sra Written 21898618 spots for SRR8433308/SRR8433308.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: 00:12:56 21898618 reads; of these: 21898618 (100.00%) were unpaired; of these: 849196 (3.88%) aligned 0 times 14942150 (68.23%) aligned exactly 1 time 6107272 (27.89%) aligned >1 times 96.12% overall alignment rate Time searching: 00:12:56 Overall time: 00:12:56 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] 2685917 / 21049422 = 0.1276 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 00:07:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.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 00:07:35: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:07:35: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:07:41: 1000000 INFO @ Tue, 30 Jun 2020 00:07:47: 2000000 INFO @ Tue, 30 Jun 2020 00:07:53: 3000000 INFO @ Tue, 30 Jun 2020 00:07:59: 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 00:08:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.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 00:08:05: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:08:05: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:08:06: 5000000 INFO @ Tue, 30 Jun 2020 00:08:12: 1000000 INFO @ Tue, 30 Jun 2020 00:08:13: 6000000 INFO @ Tue, 30 Jun 2020 00:08:20: 2000000 INFO @ Tue, 30 Jun 2020 00:08:20: 7000000 INFO @ Tue, 30 Jun 2020 00:08:27: 3000000 INFO @ Tue, 30 Jun 2020 00:08:28: 8000000 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 00:08:34: 4000000 INFO @ Tue, 30 Jun 2020 00:08:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.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 00:08:35: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:08:35: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:08:35: 9000000 INFO @ Tue, 30 Jun 2020 00:08:42: 5000000 INFO @ Tue, 30 Jun 2020 00:08:42: 10000000 INFO @ Tue, 30 Jun 2020 00:08:43: 1000000 INFO @ Tue, 30 Jun 2020 00:08:50: 11000000 INFO @ Tue, 30 Jun 2020 00:08:50: 6000000 INFO @ Tue, 30 Jun 2020 00:08:51: 2000000 INFO @ Tue, 30 Jun 2020 00:08:57: 12000000 INFO @ Tue, 30 Jun 2020 00:08:58: 7000000 INFO @ Tue, 30 Jun 2020 00:08:58: 3000000 INFO @ Tue, 30 Jun 2020 00:09:04: 13000000 INFO @ Tue, 30 Jun 2020 00:09:05: 8000000 INFO @ Tue, 30 Jun 2020 00:09:06: 4000000 INFO @ Tue, 30 Jun 2020 00:09:12: 14000000 INFO @ Tue, 30 Jun 2020 00:09:13: 9000000 INFO @ Tue, 30 Jun 2020 00:09:14: 5000000 INFO @ Tue, 30 Jun 2020 00:09:19: 15000000 INFO @ Tue, 30 Jun 2020 00:09:20: 10000000 INFO @ Tue, 30 Jun 2020 00:09:21: 6000000 INFO @ Tue, 30 Jun 2020 00:09:26: 16000000 INFO @ Tue, 30 Jun 2020 00:09:27: 11000000 INFO @ Tue, 30 Jun 2020 00:09:29: 7000000 INFO @ Tue, 30 Jun 2020 00:09:33: 17000000 INFO @ Tue, 30 Jun 2020 00:09:35: 12000000 INFO @ Tue, 30 Jun 2020 00:09:36: 8000000 INFO @ Tue, 30 Jun 2020 00:09:40: 18000000 INFO @ Tue, 30 Jun 2020 00:09:42: 13000000 INFO @ Tue, 30 Jun 2020 00:09:43: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:09:43: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:09:43: #1 total tags in treatment: 18363505 INFO @ Tue, 30 Jun 2020 00:09:43: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:09:43: #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 00:09:43: #1 tags after filtering in treatment: 18363505 INFO @ Tue, 30 Jun 2020 00:09:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:09:43: #1 finished! INFO @ Tue, 30 Jun 2020 00:09:43: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:09:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:09:44: 9000000 INFO @ Tue, 30 Jun 2020 00:09:44: #2 number of paired peaks: 74 WARNING @ Tue, 30 Jun 2020 00:09:44: Too few paired peaks (74) 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 00:09:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.05_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/SRX5241027/SRX5241027.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:09:49: 14000000 INFO @ Tue, 30 Jun 2020 00:09:51: 10000000 INFO @ Tue, 30 Jun 2020 00:09:56: 15000000 INFO @ Tue, 30 Jun 2020 00:09:58: 11000000 INFO @ Tue, 30 Jun 2020 00:10:03: 16000000 INFO @ Tue, 30 Jun 2020 00:10:05: 12000000 INFO @ Tue, 30 Jun 2020 00:10:10: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:10:12: 13000000 INFO @ Tue, 30 Jun 2020 00:10:18: 18000000 INFO @ Tue, 30 Jun 2020 00:10:20: 14000000 INFO @ Tue, 30 Jun 2020 00:10:20: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:10:20: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:10:20: #1 total tags in treatment: 18363505 INFO @ Tue, 30 Jun 2020 00:10:20: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:10:20: #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 00:10:21: #1 tags after filtering in treatment: 18363505 INFO @ Tue, 30 Jun 2020 00:10:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:10:21: #1 finished! INFO @ Tue, 30 Jun 2020 00:10:21: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:10:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:10:22: #2 number of paired peaks: 74 WARNING @ Tue, 30 Jun 2020 00:10:22: Too few paired peaks (74) 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 00:10:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.10_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/SRX5241027/SRX5241027.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:10:27: 15000000 INFO @ Tue, 30 Jun 2020 00:10:34: 16000000 INFO @ Tue, 30 Jun 2020 00:10:40: 17000000 INFO @ Tue, 30 Jun 2020 00:10:47: 18000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:10:50: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:10:50: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:10:50: #1 total tags in treatment: 18363505 INFO @ Tue, 30 Jun 2020 00:10:50: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:10:50: #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 00:10:50: #1 tags after filtering in treatment: 18363505 INFO @ Tue, 30 Jun 2020 00:10:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:10:50: #1 finished! INFO @ Tue, 30 Jun 2020 00:10:50: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:10:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:10:51: #2 number of paired peaks: 74 WARNING @ Tue, 30 Jun 2020 00:10:51: Too few paired peaks (74) 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 00:10:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.20_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/SRX5241027/SRX5241027.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241027/SRX5241027.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling