Job ID = 7099368 SRX = SRX6911503 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9420530 spots for SRR10191130/SRR10191130.sra Written 9420530 spots for SRR10191130/SRR10191130.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: 00:10:22 9420530 reads; of these: 9420530 (100.00%) were paired; of these: 2768104 (29.38%) aligned concordantly 0 times 5218866 (55.40%) aligned concordantly exactly 1 time 1433560 (15.22%) aligned concordantly >1 times ---- 2768104 pairs aligned concordantly 0 times; of these: 1281335 (46.29%) aligned discordantly 1 time ---- 1486769 pairs aligned 0 times concordantly or discordantly; of these: 2973538 mates make up the pairs; of these: 1679449 (56.48%) aligned 0 times 543104 (18.26%) aligned exactly 1 time 750985 (25.26%) aligned >1 times 91.09% overall alignment rate Time searching: 00:10:22 Overall time: 00:10:22 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 8 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 550391 / 7929101 = 0.0694 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 @ Wed, 22 Jul 2020 12:20:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 12:20:40: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:20:40: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:20:45: 1000000 INFO @ Wed, 22 Jul 2020 12:20:51: 2000000 INFO @ Wed, 22 Jul 2020 12:20:56: 3000000 INFO @ Wed, 22 Jul 2020 12:21:01: 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 @ Wed, 22 Jul 2020 12:21:07: 5000000 INFO @ Wed, 22 Jul 2020 12:21:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 12:21:08: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:21:08: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:21:12: 6000000 INFO @ Wed, 22 Jul 2020 12:21:14: 1000000 INFO @ Wed, 22 Jul 2020 12:21:18: 7000000 INFO @ Wed, 22 Jul 2020 12:21:21: 2000000 INFO @ Wed, 22 Jul 2020 12:21:24: 8000000 INFO @ Wed, 22 Jul 2020 12:21:26: 3000000 INFO @ Wed, 22 Jul 2020 12:21:29: 9000000 INFO @ Wed, 22 Jul 2020 12:21:32: 4000000 INFO @ Wed, 22 Jul 2020 12:21:35: 10000000 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 @ Wed, 22 Jul 2020 12:21:37: 5000000 INFO @ Wed, 22 Jul 2020 12:21:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 12:21:39: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:21:39: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:21:40: 11000000 INFO @ Wed, 22 Jul 2020 12:21:43: 6000000 INFO @ Wed, 22 Jul 2020 12:21:45: 1000000 INFO @ Wed, 22 Jul 2020 12:21:46: 12000000 INFO @ Wed, 22 Jul 2020 12:21:49: 7000000 INFO @ Wed, 22 Jul 2020 12:21:52: 2000000 INFO @ Wed, 22 Jul 2020 12:21:52: 13000000 INFO @ Wed, 22 Jul 2020 12:21:55: 8000000 INFO @ Wed, 22 Jul 2020 12:21:58: 14000000 INFO @ Wed, 22 Jul 2020 12:21:58: 3000000 INFO @ Wed, 22 Jul 2020 12:22:01: 9000000 INFO @ Wed, 22 Jul 2020 12:22:04: 15000000 INFO @ Wed, 22 Jul 2020 12:22:05: 4000000 INFO @ Wed, 22 Jul 2020 12:22:07: 10000000 INFO @ Wed, 22 Jul 2020 12:22:09: 16000000 INFO @ Wed, 22 Jul 2020 12:22:10: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:22:10: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:22:10: #1 total tags in treatment: 6159463 INFO @ Wed, 22 Jul 2020 12:22:10: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:22:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 12:22:10: #1 tags after filtering in treatment: 4380838 INFO @ Wed, 22 Jul 2020 12:22:10: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 12:22:10: #1 finished! INFO @ Wed, 22 Jul 2020 12:22:10: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:22:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:22:10: #2 number of paired peaks: 39 WARNING @ Wed, 22 Jul 2020 12:22:10: Too few paired peaks (39) 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 @ Wed, 22 Jul 2020 12:22:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.05_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/sacCer3/SRX6911503/SRX6911503.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:22:11: 5000000 INFO @ Wed, 22 Jul 2020 12:22:13: 11000000 INFO @ Wed, 22 Jul 2020 12:22:18: 6000000 INFO @ Wed, 22 Jul 2020 12:22:19: 12000000 INFO @ Wed, 22 Jul 2020 12:22:24: 7000000 INFO @ Wed, 22 Jul 2020 12:22:24: 13000000 INFO @ Wed, 22 Jul 2020 12:22:30: 14000000 INFO @ Wed, 22 Jul 2020 12:22:31: 8000000 INFO @ Wed, 22 Jul 2020 12:22:36: 15000000 INFO @ Wed, 22 Jul 2020 12:22:38: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 12:22:42: 16000000 INFO @ Wed, 22 Jul 2020 12:22:42: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:22:42: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:22:42: #1 total tags in treatment: 6159463 INFO @ Wed, 22 Jul 2020 12:22:42: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:22:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 12:22:42: #1 tags after filtering in treatment: 4380838 INFO @ Wed, 22 Jul 2020 12:22:42: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 12:22:42: #1 finished! INFO @ Wed, 22 Jul 2020 12:22:42: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:22:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:22:43: #2 number of paired peaks: 39 WARNING @ Wed, 22 Jul 2020 12:22:43: Too few paired peaks (39) 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 @ Wed, 22 Jul 2020 12:22:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.10_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/sacCer3/SRX6911503/SRX6911503.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:22:44: 10000000 INFO @ Wed, 22 Jul 2020 12:22:50: 11000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 12:22:56: 12000000 INFO @ Wed, 22 Jul 2020 12:23:03: 13000000 INFO @ Wed, 22 Jul 2020 12:23:09: 14000000 INFO @ Wed, 22 Jul 2020 12:23:16: 15000000 INFO @ Wed, 22 Jul 2020 12:23:22: 16000000 INFO @ Wed, 22 Jul 2020 12:23:23: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:23:23: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:23:23: #1 total tags in treatment: 6159463 INFO @ Wed, 22 Jul 2020 12:23:23: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:23:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 12:23:23: #1 tags after filtering in treatment: 4380838 INFO @ Wed, 22 Jul 2020 12:23:23: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 12:23:23: #1 finished! INFO @ Wed, 22 Jul 2020 12:23:23: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:23:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:23:23: #2 number of paired peaks: 39 WARNING @ Wed, 22 Jul 2020 12:23:23: Too few paired peaks (39) 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 @ Wed, 22 Jul 2020 12:23:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.20_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/sacCer3/SRX6911503/SRX6911503.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911503/SRX6911503.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling