Job ID = 7113450 SRX = SRX8462169 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:37:25 prefetch.2.10.7: 1) Downloading 'SRR11915628'... 2020-07-22T05:37:25 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:40:24 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:40:25 prefetch.2.10.7: 'SRR11915628' is valid 2020-07-22T05:40:25 prefetch.2.10.7: 1) 'SRR11915628' was downloaded successfully 2020-07-22T05:40:25 prefetch.2.10.7: 'SRR11915628' has 0 unresolved dependencies Read 6462670 spots for SRR11915628/SRR11915628.sra Written 6462670 spots for SRR11915628/SRR11915628.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: 00:02:32 6462670 reads; of these: 6462670 (100.00%) were paired; of these: 4214315 (65.21%) aligned concordantly 0 times 1885998 (29.18%) aligned concordantly exactly 1 time 362357 (5.61%) aligned concordantly >1 times ---- 4214315 pairs aligned concordantly 0 times; of these: 30699 (0.73%) aligned discordantly 1 time ---- 4183616 pairs aligned 0 times concordantly or discordantly; of these: 8367232 mates make up the pairs; of these: 8308145 (99.29%) aligned 0 times 40336 (0.48%) aligned exactly 1 time 18751 (0.22%) aligned >1 times 35.72% overall alignment rate Time searching: 00:02:32 Overall time: 00:02:32 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_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] 1826902 / 2278893 = 0.8017 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 14:45:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.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 14:45:00: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:45:00: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:45:06: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:45:06: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:45:06: #1 total tags in treatment: 437685 INFO @ Wed, 22 Jul 2020 14:45:06: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:45:06: #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 14:45:06: #1 tags after filtering in treatment: 352316 INFO @ Wed, 22 Jul 2020 14:45:06: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Jul 2020 14:45:06: #1 finished! INFO @ Wed, 22 Jul 2020 14:45:06: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:45:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:45:06: #2 number of paired peaks: 85 WARNING @ Wed, 22 Jul 2020 14:45:06: Too few paired peaks (85) 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 14:45:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.05_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/SRX8462169/SRX8462169.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 14:45:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.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 14:45:30: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:45:30: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:45:36: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:45:36: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:45:36: #1 total tags in treatment: 437685 INFO @ Wed, 22 Jul 2020 14:45:36: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:45:36: #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 14:45:36: #1 tags after filtering in treatment: 352316 INFO @ Wed, 22 Jul 2020 14:45:36: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Jul 2020 14:45:36: #1 finished! INFO @ Wed, 22 Jul 2020 14:45:36: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:45:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:45:36: #2 number of paired peaks: 85 WARNING @ Wed, 22 Jul 2020 14:45:36: Too few paired peaks (85) 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 14:45:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.10_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/SRX8462169/SRX8462169.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 14:46:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.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 14:46:00: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:46:00: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:46:06: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:46:06: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:46:06: #1 total tags in treatment: 437685 INFO @ Wed, 22 Jul 2020 14:46:06: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:46:06: #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 14:46:06: #1 tags after filtering in treatment: 352316 INFO @ Wed, 22 Jul 2020 14:46:06: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Jul 2020 14:46:06: #1 finished! INFO @ Wed, 22 Jul 2020 14:46:06: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:46:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:46:06: #2 number of paired peaks: 85 WARNING @ Wed, 22 Jul 2020 14:46:06: Too few paired peaks (85) 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 14:46:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.20_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/SRX8462169/SRX8462169.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462169/SRX8462169.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling