Job ID = 10223934 SRX = SRX7496385 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10829210 spots for SRR10822996/SRR10822996.sra Written 10829210 spots for SRR10822996/SRR10822996.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: 00:04:08 10829210 reads; of these: 10829210 (100.00%) were paired; of these: 5904880 (54.53%) aligned concordantly 0 times 4319749 (39.89%) aligned concordantly exactly 1 time 604581 (5.58%) aligned concordantly >1 times ---- 5904880 pairs aligned concordantly 0 times; of these: 36629 (0.62%) aligned discordantly 1 time ---- 5868251 pairs aligned 0 times concordantly or discordantly; of these: 11736502 mates make up the pairs; of these: 6399912 (54.53%) aligned 0 times 4674373 (39.83%) aligned exactly 1 time 662217 (5.64%) aligned >1 times 70.45% overall alignment rate Time searching: 00:04:08 Overall time: 00:04:08 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] 287742 / 4959221 = 0.0580 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 09:00:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.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 09:00:27: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:00:27: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:00:32: 1000000 INFO @ Fri, 16 Oct 2020 09:00:37: 2000000 INFO @ Fri, 16 Oct 2020 09:00:42: 3000000 INFO @ Fri, 16 Oct 2020 09:00:46: 4000000 INFO @ Fri, 16 Oct 2020 09:00:51: 5000000 INFO @ Fri, 16 Oct 2020 09:00:56: 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 09:00:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.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 09:00:57: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:00:57: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:01:01: 7000000 INFO @ Fri, 16 Oct 2020 09:01:03: 1000000 INFO @ Fri, 16 Oct 2020 09:01:06: 8000000 INFO @ Fri, 16 Oct 2020 09:01:08: 2000000 INFO @ Fri, 16 Oct 2020 09:01:12: 9000000 INFO @ Fri, 16 Oct 2020 09:01:14: 3000000 INFO @ Fri, 16 Oct 2020 09:01:17: 10000000 INFO @ Fri, 16 Oct 2020 09:01:19: 4000000 INFO @ Fri, 16 Oct 2020 09:01:22: 11000000 INFO @ Fri, 16 Oct 2020 09:01:23: 5000000 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 09:01:26: 12000000 INFO @ Fri, 16 Oct 2020 09:01:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.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 09:01:27: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:01:27: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:01:28: 6000000 INFO @ Fri, 16 Oct 2020 09:01:31: 13000000 INFO @ Fri, 16 Oct 2020 09:01:33: 1000000 INFO @ Fri, 16 Oct 2020 09:01:33: 7000000 INFO @ Fri, 16 Oct 2020 09:01:36: 14000000 INFO @ Fri, 16 Oct 2020 09:01:38: 8000000 INFO @ Fri, 16 Oct 2020 09:01:39: 2000000 INFO @ Fri, 16 Oct 2020 09:01:40: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:01:40: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:01:40: #1 total tags in treatment: 4636896 INFO @ Fri, 16 Oct 2020 09:01:40: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:01:40: #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 09:01:40: #1 tags after filtering in treatment: 2914551 INFO @ Fri, 16 Oct 2020 09:01:40: #1 Redundant rate of treatment: 0.37 INFO @ Fri, 16 Oct 2020 09:01:40: #1 finished! INFO @ Fri, 16 Oct 2020 09:01:40: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:01:40: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:01:40: #2 number of paired peaks: 63 WARNING @ Fri, 16 Oct 2020 09:01:40: Too few paired peaks (63) 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 09:01:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.05_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/SRX7496385/SRX7496385.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:01:43: 9000000 INFO @ Fri, 16 Oct 2020 09:01:44: 3000000 INFO @ Fri, 16 Oct 2020 09:01:48: 10000000 INFO @ Fri, 16 Oct 2020 09:01:50: 4000000 INFO @ Fri, 16 Oct 2020 09:01:53: 11000000 INFO @ Fri, 16 Oct 2020 09:01:55: 5000000 INFO @ Fri, 16 Oct 2020 09:01:58: 12000000 INFO @ Fri, 16 Oct 2020 09:02:01: 6000000 INFO @ Fri, 16 Oct 2020 09:02:03: 13000000 INFO @ Fri, 16 Oct 2020 09:02:06: 7000000 INFO @ Fri, 16 Oct 2020 09:02:09: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:02:12: 8000000 INFO @ Fri, 16 Oct 2020 09:02:12: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:02:12: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:02:12: #1 total tags in treatment: 4636896 INFO @ Fri, 16 Oct 2020 09:02:12: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:02:12: #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 09:02:12: #1 tags after filtering in treatment: 2914551 INFO @ Fri, 16 Oct 2020 09:02:12: #1 Redundant rate of treatment: 0.37 INFO @ Fri, 16 Oct 2020 09:02:12: #1 finished! INFO @ Fri, 16 Oct 2020 09:02:12: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:02:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:02:12: #2 number of paired peaks: 63 WARNING @ Fri, 16 Oct 2020 09:02:12: Too few paired peaks (63) 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 09:02:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.10_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/SRX7496385/SRX7496385.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:02:17: 9000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:02:22: 10000000 INFO @ Fri, 16 Oct 2020 09:02:27: 11000000 INFO @ Fri, 16 Oct 2020 09:02:32: 12000000 INFO @ Fri, 16 Oct 2020 09:02:37: 13000000 INFO @ Fri, 16 Oct 2020 09:02:42: 14000000 INFO @ Fri, 16 Oct 2020 09:02:46: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:02:46: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:02:46: #1 total tags in treatment: 4636896 INFO @ Fri, 16 Oct 2020 09:02:46: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:02:46: #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 09:02:46: #1 tags after filtering in treatment: 2914551 INFO @ Fri, 16 Oct 2020 09:02:46: #1 Redundant rate of treatment: 0.37 INFO @ Fri, 16 Oct 2020 09:02:46: #1 finished! INFO @ Fri, 16 Oct 2020 09:02:46: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:02:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:02:46: #2 number of paired peaks: 63 WARNING @ Fri, 16 Oct 2020 09:02:46: Too few paired peaks (63) 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 09:02:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.20_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/sacCer3/SRX7496385/SRX7496385.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496385/SRX7496385.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling