Job ID = 7111671 SRX = SRX8357665 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:10:14 prefetch.2.10.7: 1) Downloading 'SRR11806253'... 2020-07-22T05:10:14 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:11:33 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:11:33 prefetch.2.10.7: 1) 'SRR11806253' was downloaded successfully 2020-07-22T05:11:33 prefetch.2.10.7: 'SRR11806253' has 0 unresolved dependencies Read 22319040 spots for SRR11806253/SRR11806253.sra Written 22319040 spots for SRR11806253/SRR11806253.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: 00:11:25 22319040 reads; of these: 22319040 (100.00%) were paired; of these: 3150404 (14.12%) aligned concordantly 0 times 8896862 (39.86%) aligned concordantly exactly 1 time 10271774 (46.02%) aligned concordantly >1 times ---- 3150404 pairs aligned concordantly 0 times; of these: 62076 (1.97%) aligned discordantly 1 time ---- 3088328 pairs aligned 0 times concordantly or discordantly; of these: 6176656 mates make up the pairs; of these: 5670727 (91.81%) aligned 0 times 120167 (1.95%) aligned exactly 1 time 385762 (6.25%) aligned >1 times 87.30% overall alignment rate Time searching: 00:11:25 Overall time: 00:11:25 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 16 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] 12449989 / 19196778 = 0.6485 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 14:30:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.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 14:30:16: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:30:16: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:30:21: 1000000 INFO @ Wed, 22 Jul 2020 14:30:26: 2000000 INFO @ Wed, 22 Jul 2020 14:30:32: 3000000 INFO @ Wed, 22 Jul 2020 14:30:37: 4000000 INFO @ Wed, 22 Jul 2020 14:30:42: 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 @ Wed, 22 Jul 2020 14:30:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.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 14:30:46: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:30:46: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:30:48: 6000000 INFO @ Wed, 22 Jul 2020 14:30:52: 1000000 INFO @ Wed, 22 Jul 2020 14:30:53: 7000000 INFO @ Wed, 22 Jul 2020 14:30:57: 2000000 INFO @ Wed, 22 Jul 2020 14:30:59: 8000000 INFO @ Wed, 22 Jul 2020 14:31:03: 3000000 INFO @ Wed, 22 Jul 2020 14:31:04: 9000000 INFO @ Wed, 22 Jul 2020 14:31:09: 4000000 INFO @ Wed, 22 Jul 2020 14:31:10: 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 14:31:14: 5000000 INFO @ Wed, 22 Jul 2020 14:31:15: 11000000 INFO @ Wed, 22 Jul 2020 14:31:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.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 14:31:16: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:31:16: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:31:20: 6000000 INFO @ Wed, 22 Jul 2020 14:31:21: 12000000 INFO @ Wed, 22 Jul 2020 14:31:22: 1000000 INFO @ Wed, 22 Jul 2020 14:31:26: 7000000 INFO @ Wed, 22 Jul 2020 14:31:27: 13000000 INFO @ Wed, 22 Jul 2020 14:31:28: 2000000 INFO @ Wed, 22 Jul 2020 14:31:32: 8000000 INFO @ Wed, 22 Jul 2020 14:31:33: 14000000 INFO @ Wed, 22 Jul 2020 14:31:33: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:31:33: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:31:33: #1 total tags in treatment: 6744138 INFO @ Wed, 22 Jul 2020 14:31:33: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:31:33: #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 14:31:33: #1 tags after filtering in treatment: 3551809 INFO @ Wed, 22 Jul 2020 14:31:33: #1 Redundant rate of treatment: 0.47 INFO @ Wed, 22 Jul 2020 14:31:33: #1 finished! INFO @ Wed, 22 Jul 2020 14:31:33: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:31:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:31:33: #2 number of paired peaks: 31 WARNING @ Wed, 22 Jul 2020 14:31:33: Too few paired peaks (31) 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 14:31:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.05_peaks.narrowPeak: No such file or directory INFO @ Wed, 22 Jul 2020 14:31:34: 3000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:31:38: 9000000 INFO @ Wed, 22 Jul 2020 14:31:39: 4000000 INFO @ Wed, 22 Jul 2020 14:31:43: 10000000 INFO @ Wed, 22 Jul 2020 14:31:45: 5000000 INFO @ Wed, 22 Jul 2020 14:31:49: 11000000 INFO @ Wed, 22 Jul 2020 14:31:51: 6000000 INFO @ Wed, 22 Jul 2020 14:31:55: 12000000 INFO @ Wed, 22 Jul 2020 14:31:57: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:32:01: 13000000 INFO @ Wed, 22 Jul 2020 14:32:03: 8000000 INFO @ Wed, 22 Jul 2020 14:32:06: 14000000 INFO @ Wed, 22 Jul 2020 14:32:07: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:32:07: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:32:07: #1 total tags in treatment: 6744138 INFO @ Wed, 22 Jul 2020 14:32:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:32:07: #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 14:32:07: #1 tags after filtering in treatment: 3551809 INFO @ Wed, 22 Jul 2020 14:32:07: #1 Redundant rate of treatment: 0.47 INFO @ Wed, 22 Jul 2020 14:32:07: #1 finished! INFO @ Wed, 22 Jul 2020 14:32:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:32:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:32:07: #2 number of paired peaks: 31 WARNING @ Wed, 22 Jul 2020 14:32:07: Too few paired peaks (31) 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 14:32:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.10_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/SRX8357665/SRX8357665.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:32:08: 9000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:32:14: 10000000 INFO @ Wed, 22 Jul 2020 14:32:19: 11000000 INFO @ Wed, 22 Jul 2020 14:32:24: 12000000 INFO @ Wed, 22 Jul 2020 14:32:30: 13000000 INFO @ Wed, 22 Jul 2020 14:32:35: 14000000 INFO @ Wed, 22 Jul 2020 14:32:36: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:32:36: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:32:36: #1 total tags in treatment: 6744138 INFO @ Wed, 22 Jul 2020 14:32:36: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:32:36: #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 14:32:36: #1 tags after filtering in treatment: 3551809 INFO @ Wed, 22 Jul 2020 14:32:36: #1 Redundant rate of treatment: 0.47 INFO @ Wed, 22 Jul 2020 14:32:36: #1 finished! INFO @ Wed, 22 Jul 2020 14:32:36: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:32:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:32:36: #2 number of paired peaks: 31 WARNING @ Wed, 22 Jul 2020 14:32:36: Too few paired peaks (31) 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 14:32:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.20_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/SRX8357665/SRX8357665.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357665/SRX8357665.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling