Job ID = 6453325 SRX = SRX111800 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:18:03 prefetch.2.10.7: 1) Downloading 'SRR390256'... 2020-06-21T08:18:03 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:24:31 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:24:32 prefetch.2.10.7: 'SRR390256' is valid 2020-06-21T08:24:32 prefetch.2.10.7: 1) 'SRR390256' was downloaded successfully Read 19927623 spots for SRR390256/SRR390256.sra Written 19927623 spots for SRR390256/SRR390256.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: 00:05:11 19927623 reads; of these: 19927623 (100.00%) were unpaired; of these: 336459 (1.69%) aligned 0 times 15092957 (75.74%) aligned exactly 1 time 4498207 (22.57%) aligned >1 times 98.31% overall alignment rate Time searching: 00:05:11 Overall time: 00:05:11 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] 4747548 / 19591164 = 0.2423 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 17:35:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.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 17:35:11: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:35:11: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:35:16: 1000000 INFO @ Sun, 21 Jun 2020 17:35:22: 2000000 INFO @ Sun, 21 Jun 2020 17:35:27: 3000000 INFO @ Sun, 21 Jun 2020 17:35:32: 4000000 INFO @ Sun, 21 Jun 2020 17:35:37: 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 @ Sun, 21 Jun 2020 17:35:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.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 17:35:41: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:35:41: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:35:42: 6000000 INFO @ Sun, 21 Jun 2020 17:35:47: 1000000 INFO @ Sun, 21 Jun 2020 17:35:48: 7000000 INFO @ Sun, 21 Jun 2020 17:35:52: 2000000 INFO @ Sun, 21 Jun 2020 17:35:53: 8000000 INFO @ Sun, 21 Jun 2020 17:35:58: 3000000 INFO @ Sun, 21 Jun 2020 17:35:59: 9000000 INFO @ Sun, 21 Jun 2020 17:36:03: 4000000 INFO @ Sun, 21 Jun 2020 17:36:04: 10000000 INFO @ Sun, 21 Jun 2020 17:36:09: 5000000 BedGraph に変換中... INFO @ Sun, 21 Jun 2020 17:36:09: 11000000 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 17:36:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.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 17:36:11: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:36:11: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:36:14: 6000000 INFO @ Sun, 21 Jun 2020 17:36:15: 12000000 INFO @ Sun, 21 Jun 2020 17:36:17: 1000000 INFO @ Sun, 21 Jun 2020 17:36:20: 7000000 INFO @ Sun, 21 Jun 2020 17:36:21: 13000000 INFO @ Sun, 21 Jun 2020 17:36:22: 2000000 INFO @ Sun, 21 Jun 2020 17:36:25: 8000000 INFO @ Sun, 21 Jun 2020 17:36:26: 14000000 INFO @ Sun, 21 Jun 2020 17:36:28: 3000000 INFO @ Sun, 21 Jun 2020 17:36:31: 9000000 INFO @ Sun, 21 Jun 2020 17:36:31: #1 tag size is determined as 44 bps INFO @ Sun, 21 Jun 2020 17:36:31: #1 tag size = 44 INFO @ Sun, 21 Jun 2020 17:36:31: #1 total tags in treatment: 14843616 INFO @ Sun, 21 Jun 2020 17:36:31: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:36:31: #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 17:36:32: #1 tags after filtering in treatment: 14843615 INFO @ Sun, 21 Jun 2020 17:36:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:36:32: #1 finished! INFO @ Sun, 21 Jun 2020 17:36:32: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:36:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:36:33: #2 number of paired peaks: 83 WARNING @ Sun, 21 Jun 2020 17:36:33: Too few paired peaks (83) 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 17:36:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.05_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/dm6/SRX111800/SRX111800.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:36:34: 4000000 INFO @ Sun, 21 Jun 2020 17:36:36: 10000000 INFO @ Sun, 21 Jun 2020 17:36:39: 5000000 INFO @ Sun, 21 Jun 2020 17:36:42: 11000000 INFO @ Sun, 21 Jun 2020 17:36:45: 6000000 INFO @ Sun, 21 Jun 2020 17:36:47: 12000000 INFO @ Sun, 21 Jun 2020 17:36:50: 7000000 INFO @ Sun, 21 Jun 2020 17:36:53: 13000000 INFO @ Sun, 21 Jun 2020 17:36:55: 8000000 INFO @ Sun, 21 Jun 2020 17:36:58: 14000000 INFO @ Sun, 21 Jun 2020 17:37:01: 9000000 INFO @ Sun, 21 Jun 2020 17:37:03: #1 tag size is determined as 44 bps INFO @ Sun, 21 Jun 2020 17:37:03: #1 tag size = 44 INFO @ Sun, 21 Jun 2020 17:37:03: #1 total tags in treatment: 14843616 INFO @ Sun, 21 Jun 2020 17:37:03: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:37:03: #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 17:37:04: #1 tags after filtering in treatment: 14843615 INFO @ Sun, 21 Jun 2020 17:37:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:37:04: #1 finished! INFO @ Sun, 21 Jun 2020 17:37:04: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:37:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:37:05: #2 number of paired peaks: 83 WARNING @ Sun, 21 Jun 2020 17:37:05: Too few paired peaks (83) 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 17:37:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.10_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/SRX111800/SRX111800.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:37:06: 10000000 INFO @ Sun, 21 Jun 2020 17:37:11: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:37:17: 12000000 INFO @ Sun, 21 Jun 2020 17:37:22: 13000000 INFO @ Sun, 21 Jun 2020 17:37:27: 14000000 INFO @ Sun, 21 Jun 2020 17:37:32: #1 tag size is determined as 44 bps INFO @ Sun, 21 Jun 2020 17:37:32: #1 tag size = 44 INFO @ Sun, 21 Jun 2020 17:37:32: #1 total tags in treatment: 14843616 INFO @ Sun, 21 Jun 2020 17:37:32: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:37:32: #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 17:37:32: #1 tags after filtering in treatment: 14843615 INFO @ Sun, 21 Jun 2020 17:37:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:37:32: #1 finished! INFO @ Sun, 21 Jun 2020 17:37:32: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:37:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:37:33: #2 number of paired peaks: 83 WARNING @ Sun, 21 Jun 2020 17:37:33: Too few paired peaks (83) 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 17:37:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.20_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/SRX111800/SRX111800.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX111800/SRX111800.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。