Job ID = 10223950 SRX = SRX7496399 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 22277173 spots for SRR10823010/SRR10823010.sra Written 22277173 spots for SRR10823010/SRR10823010.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: 00:08:05 22277173 reads; of these: 22277173 (100.00%) were paired; of these: 12212011 (54.82%) aligned concordantly 0 times 9244079 (41.50%) aligned concordantly exactly 1 time 821083 (3.69%) aligned concordantly >1 times ---- 12212011 pairs aligned concordantly 0 times; of these: 34763 (0.28%) aligned discordantly 1 time ---- 12177248 pairs aligned 0 times concordantly or discordantly; of these: 24354496 mates make up the pairs; of these: 14398516 (59.12%) aligned 0 times 9059594 (37.20%) aligned exactly 1 time 896386 (3.68%) aligned >1 times 67.68% overall alignment rate Time searching: 00:08:05 Overall time: 00:08:05 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 12 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] 671268 / 10088317 = 0.0665 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 @ Fri, 16 Oct 2020 09:12:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.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 @ Fri, 16 Oct 2020 09:12:37: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:12:37: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:12:41: 1000000 INFO @ Fri, 16 Oct 2020 09:12:46: 2000000 INFO @ Fri, 16 Oct 2020 09:12:50: 3000000 INFO @ Fri, 16 Oct 2020 09:12:54: 4000000 INFO @ Fri, 16 Oct 2020 09:12:59: 5000000 INFO @ Fri, 16 Oct 2020 09:13:04: 6000000 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 @ Fri, 16 Oct 2020 09:13:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.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 @ Fri, 16 Oct 2020 09:13:07: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:13:07: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:13:09: 7000000 INFO @ Fri, 16 Oct 2020 09:13:13: 1000000 INFO @ Fri, 16 Oct 2020 09:13:14: 8000000 INFO @ Fri, 16 Oct 2020 09:13:19: 9000000 INFO @ Fri, 16 Oct 2020 09:13:19: 2000000 INFO @ Fri, 16 Oct 2020 09:13:24: 10000000 INFO @ Fri, 16 Oct 2020 09:13:25: 3000000 INFO @ Fri, 16 Oct 2020 09:13:29: 11000000 INFO @ Fri, 16 Oct 2020 09:13:31: 4000000 INFO @ Fri, 16 Oct 2020 09:13:34: 12000000 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 @ Fri, 16 Oct 2020 09:13:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.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 @ Fri, 16 Oct 2020 09:13:37: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:13:37: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:13:37: 5000000 INFO @ Fri, 16 Oct 2020 09:13:39: 13000000 INFO @ Fri, 16 Oct 2020 09:13:42: 1000000 INFO @ Fri, 16 Oct 2020 09:13:43: 6000000 INFO @ Fri, 16 Oct 2020 09:13:45: 14000000 INFO @ Fri, 16 Oct 2020 09:13:47: 2000000 INFO @ Fri, 16 Oct 2020 09:13:49: 7000000 INFO @ Fri, 16 Oct 2020 09:13:50: 15000000 INFO @ Fri, 16 Oct 2020 09:13:53: 3000000 INFO @ Fri, 16 Oct 2020 09:13:55: 8000000 INFO @ Fri, 16 Oct 2020 09:13:55: 16000000 INFO @ Fri, 16 Oct 2020 09:13:58: 4000000 INFO @ Fri, 16 Oct 2020 09:14:01: 17000000 INFO @ Fri, 16 Oct 2020 09:14:01: 9000000 INFO @ Fri, 16 Oct 2020 09:14:03: 5000000 INFO @ Fri, 16 Oct 2020 09:14:06: 18000000 INFO @ Fri, 16 Oct 2020 09:14:07: 10000000 INFO @ Fri, 16 Oct 2020 09:14:09: 6000000 INFO @ Fri, 16 Oct 2020 09:14:11: 19000000 INFO @ Fri, 16 Oct 2020 09:14:13: 11000000 INFO @ Fri, 16 Oct 2020 09:14:14: 7000000 INFO @ Fri, 16 Oct 2020 09:14:16: 20000000 INFO @ Fri, 16 Oct 2020 09:14:19: 12000000 INFO @ Fri, 16 Oct 2020 09:14:19: 8000000 INFO @ Fri, 16 Oct 2020 09:14:21: 21000000 INFO @ Fri, 16 Oct 2020 09:14:24: 9000000 INFO @ Fri, 16 Oct 2020 09:14:25: 13000000 INFO @ Fri, 16 Oct 2020 09:14:26: 22000000 INFO @ Fri, 16 Oct 2020 09:14:29: 10000000 INFO @ Fri, 16 Oct 2020 09:14:31: 14000000 INFO @ Fri, 16 Oct 2020 09:14:32: 23000000 INFO @ Fri, 16 Oct 2020 09:14:34: 11000000 INFO @ Fri, 16 Oct 2020 09:14:37: 15000000 INFO @ Fri, 16 Oct 2020 09:14:37: 24000000 INFO @ Fri, 16 Oct 2020 09:14:40: 12000000 INFO @ Fri, 16 Oct 2020 09:14:42: 25000000 INFO @ Fri, 16 Oct 2020 09:14:43: 16000000 INFO @ Fri, 16 Oct 2020 09:14:45: 13000000 INFO @ Fri, 16 Oct 2020 09:14:47: 26000000 INFO @ Fri, 16 Oct 2020 09:14:49: 17000000 INFO @ Fri, 16 Oct 2020 09:14:50: 14000000 INFO @ Fri, 16 Oct 2020 09:14:53: 27000000 INFO @ Fri, 16 Oct 2020 09:14:55: 18000000 INFO @ Fri, 16 Oct 2020 09:14:55: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:14:59: 28000000 INFO @ Fri, 16 Oct 2020 09:15:01: 16000000 INFO @ Fri, 16 Oct 2020 09:15:01: 19000000 INFO @ Fri, 16 Oct 2020 09:15:03: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:15:03: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:15:03: #1 total tags in treatment: 9394143 INFO @ Fri, 16 Oct 2020 09:15:03: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:15:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:15:03: #1 tags after filtering in treatment: 4766689 INFO @ Fri, 16 Oct 2020 09:15:03: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 16 Oct 2020 09:15:03: #1 finished! INFO @ Fri, 16 Oct 2020 09:15:03: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:15:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:15:03: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:15:03: Too few paired peaks (0) 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 @ Fri, 16 Oct 2020 09:15:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.05_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/SRX7496399/SRX7496399.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:15:06: 17000000 INFO @ Fri, 16 Oct 2020 09:15:07: 20000000 INFO @ Fri, 16 Oct 2020 09:15:11: 18000000 INFO @ Fri, 16 Oct 2020 09:15:13: 21000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:15:16: 19000000 INFO @ Fri, 16 Oct 2020 09:15:19: 22000000 INFO @ Fri, 16 Oct 2020 09:15:21: 20000000 INFO @ Fri, 16 Oct 2020 09:15:25: 23000000 INFO @ Fri, 16 Oct 2020 09:15:27: 21000000 INFO @ Fri, 16 Oct 2020 09:15:31: 24000000 INFO @ Fri, 16 Oct 2020 09:15:32: 22000000 INFO @ Fri, 16 Oct 2020 09:15:37: 25000000 INFO @ Fri, 16 Oct 2020 09:15:37: 23000000 INFO @ Fri, 16 Oct 2020 09:15:42: 24000000 INFO @ Fri, 16 Oct 2020 09:15:43: 26000000 INFO @ Fri, 16 Oct 2020 09:15:47: 25000000 INFO @ Fri, 16 Oct 2020 09:15:49: 27000000 INFO @ Fri, 16 Oct 2020 09:15:53: 26000000 INFO @ Fri, 16 Oct 2020 09:15:55: 28000000 INFO @ Fri, 16 Oct 2020 09:15:58: 27000000 INFO @ Fri, 16 Oct 2020 09:15:59: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:15:59: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:15:59: #1 total tags in treatment: 9394143 INFO @ Fri, 16 Oct 2020 09:15:59: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:15:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:16:00: #1 tags after filtering in treatment: 4766689 INFO @ Fri, 16 Oct 2020 09:16:00: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 16 Oct 2020 09:16:00: #1 finished! INFO @ Fri, 16 Oct 2020 09:16:00: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:16:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:16:00: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:16:00: Too few paired peaks (0) 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 @ Fri, 16 Oct 2020 09:16:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.10_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/SRX7496399/SRX7496399.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:16:03: 28000000 INFO @ Fri, 16 Oct 2020 09:16:06: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:16:06: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:16:06: #1 total tags in treatment: 9394143 INFO @ Fri, 16 Oct 2020 09:16:06: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:16:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:16:07: #1 tags after filtering in treatment: 4766689 INFO @ Fri, 16 Oct 2020 09:16:07: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 16 Oct 2020 09:16:07: #1 finished! INFO @ Fri, 16 Oct 2020 09:16:07: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:16:07: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:16:07: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:16:07: Too few paired peaks (0) 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 @ Fri, 16 Oct 2020 09:16:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.20_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/SRX7496399/SRX7496399.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496399/SRX7496399.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling