Job ID = 6454334 SRX = SRX2010899 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:18:09 prefetch.2.10.7: 1) Downloading 'SRR4017022'... 2020-06-21T09:18:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:19:57 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:19:58 prefetch.2.10.7: 'SRR4017022' is valid 2020-06-21T09:19:58 prefetch.2.10.7: 1) 'SRR4017022' was downloaded successfully Read 15934847 spots for SRR4017022/SRR4017022.sra Written 15934847 spots for SRR4017022/SRR4017022.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: 00:03:28 15934847 reads; of these: 15934847 (100.00%) were unpaired; of these: 420858 (2.64%) aligned 0 times 12388205 (77.74%) aligned exactly 1 time 3125784 (19.62%) aligned >1 times 97.36% overall alignment rate Time searching: 00:03:28 Overall time: 00:03:28 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3160468 / 15513989 = 0.2037 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 @ Sun, 21 Jun 2020 18:27:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.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 @ Sun, 21 Jun 2020 18:27:50: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:27:50: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:27:55: 1000000 INFO @ Sun, 21 Jun 2020 18:28:01: 2000000 INFO @ Sun, 21 Jun 2020 18:28:06: 3000000 INFO @ Sun, 21 Jun 2020 18:28:12: 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 @ Sun, 21 Jun 2020 18:28:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.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 @ Sun, 21 Jun 2020 18:28:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:28:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:28:17: 5000000 INFO @ Sun, 21 Jun 2020 18:28:23: 1000000 INFO @ Sun, 21 Jun 2020 18:28:24: 6000000 INFO @ Sun, 21 Jun 2020 18:28:29: 2000000 INFO @ Sun, 21 Jun 2020 18:28:30: 7000000 INFO @ Sun, 21 Jun 2020 18:28:35: 3000000 INFO @ Sun, 21 Jun 2020 18:28:36: 8000000 INFO @ Sun, 21 Jun 2020 18:28:42: 4000000 INFO @ Sun, 21 Jun 2020 18:28:43: 9000000 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 @ Sun, 21 Jun 2020 18:28:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.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 @ Sun, 21 Jun 2020 18:28:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:28:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:28:48: 5000000 INFO @ Sun, 21 Jun 2020 18:28:49: 10000000 INFO @ Sun, 21 Jun 2020 18:28:53: 1000000 INFO @ Sun, 21 Jun 2020 18:28:54: 6000000 INFO @ Sun, 21 Jun 2020 18:28:56: 11000000 INFO @ Sun, 21 Jun 2020 18:28:59: 2000000 INFO @ Sun, 21 Jun 2020 18:29:00: 7000000 INFO @ Sun, 21 Jun 2020 18:29:02: 12000000 INFO @ Sun, 21 Jun 2020 18:29:04: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:29:04: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:29:04: #1 total tags in treatment: 12353521 INFO @ Sun, 21 Jun 2020 18:29:04: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:29:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:29:05: #1 tags after filtering in treatment: 12353520 INFO @ Sun, 21 Jun 2020 18:29:05: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:29:05: #1 finished! INFO @ Sun, 21 Jun 2020 18:29:05: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:29:05: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:29:06: #2 number of paired peaks: 37 WARNING @ Sun, 21 Jun 2020 18:29:06: Too few paired peaks (37) 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 @ Sun, 21 Jun 2020 18:29:06: Process for pairing-model is terminated! INFO @ Sun, 21 Jun 2020 18:29:06: 3000000 cut: /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.05_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/dm6/SRX2010899/SRX2010899.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:29:07: 8000000 INFO @ Sun, 21 Jun 2020 18:29:12: 4000000 INFO @ Sun, 21 Jun 2020 18:29:13: 9000000 INFO @ Sun, 21 Jun 2020 18:29:18: 5000000 INFO @ Sun, 21 Jun 2020 18:29:19: 10000000 INFO @ Sun, 21 Jun 2020 18:29:24: 6000000 INFO @ Sun, 21 Jun 2020 18:29:26: 11000000 INFO @ Sun, 21 Jun 2020 18:29:31: 7000000 INFO @ Sun, 21 Jun 2020 18:29:32: 12000000 INFO @ Sun, 21 Jun 2020 18:29:35: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:29:35: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:29:35: #1 total tags in treatment: 12353521 INFO @ Sun, 21 Jun 2020 18:29:35: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:29:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:29:35: #1 tags after filtering in treatment: 12353520 INFO @ Sun, 21 Jun 2020 18:29:35: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:29:35: #1 finished! INFO @ Sun, 21 Jun 2020 18:29:35: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:29:35: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:29:36: #2 number of paired peaks: 37 WARNING @ Sun, 21 Jun 2020 18:29:36: Too few paired peaks (37) 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 @ Sun, 21 Jun 2020 18:29:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.10_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/dm6/SRX2010899/SRX2010899.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:29:37: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:29:43: 9000000 INFO @ Sun, 21 Jun 2020 18:29:48: 10000000 INFO @ Sun, 21 Jun 2020 18:29:54: 11000000 INFO @ Sun, 21 Jun 2020 18:30:00: 12000000 INFO @ Sun, 21 Jun 2020 18:30:02: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:30:02: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:30:02: #1 total tags in treatment: 12353521 INFO @ Sun, 21 Jun 2020 18:30:02: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:30:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:30:02: #1 tags after filtering in treatment: 12353520 INFO @ Sun, 21 Jun 2020 18:30:02: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:30:02: #1 finished! INFO @ Sun, 21 Jun 2020 18:30:02: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:30:02: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:30:03: #2 number of paired peaks: 37 WARNING @ Sun, 21 Jun 2020 18:30:03: Too few paired peaks (37) 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 @ Sun, 21 Jun 2020 18:30:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.20_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/dm6/SRX2010899/SRX2010899.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2010899/SRX2010899.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。