Job ID = 7114808 SRX = SRX8462213 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:01:48 prefetch.2.10.7: 1) Downloading 'SRR11915672'... 2020-07-22T06:01:48 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:02:36 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:02:36 prefetch.2.10.7: 'SRR11915672' is valid 2020-07-22T06:02:36 prefetch.2.10.7: 1) 'SRR11915672' was downloaded successfully 2020-07-22T06:02:36 prefetch.2.10.7: 'SRR11915672' has 0 unresolved dependencies Read 2207240 spots for SRR11915672/SRR11915672.sra Written 2207240 spots for SRR11915672/SRR11915672.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: 00:02:08 2207240 reads; of these: 2207240 (100.00%) were paired; of these: 165772 (7.51%) aligned concordantly 0 times 1769123 (80.15%) aligned concordantly exactly 1 time 272345 (12.34%) aligned concordantly >1 times ---- 165772 pairs aligned concordantly 0 times; of these: 11698 (7.06%) aligned discordantly 1 time ---- 154074 pairs aligned 0 times concordantly or discordantly; of these: 308148 mates make up the pairs; of these: 256807 (83.34%) aligned 0 times 40526 (13.15%) aligned exactly 1 time 10815 (3.51%) aligned >1 times 94.18% overall alignment rate Time searching: 00:02:08 Overall time: 00:02:08 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_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] 215354 / 2046953 = 0.1052 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 15:06:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.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 15:06:59: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:06:59: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:07:05: 1000000 INFO @ Wed, 22 Jul 2020 15:07:10: 2000000 INFO @ Wed, 22 Jul 2020 15:07:16: 3000000 INFO @ Wed, 22 Jul 2020 15:07:20: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:07:20: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:07:20: #1 total tags in treatment: 1826404 INFO @ Wed, 22 Jul 2020 15:07:20: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:07:20: #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 15:07:20: #1 tags after filtering in treatment: 1623641 INFO @ Wed, 22 Jul 2020 15:07:20: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 15:07:20: #1 finished! INFO @ Wed, 22 Jul 2020 15:07:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:07:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:07:20: #2 number of paired peaks: 86 WARNING @ Wed, 22 Jul 2020 15:07:20: Too few paired peaks (86) 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 15:07:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.05_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/SRX8462213/SRX8462213.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.05_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 15:07:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.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 15:07:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:07:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:07:33: 1000000 INFO @ Wed, 22 Jul 2020 15:07:39: 2000000 INFO @ Wed, 22 Jul 2020 15:07:45: 3000000 INFO @ Wed, 22 Jul 2020 15:07:49: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:07:49: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:07:49: #1 total tags in treatment: 1826404 INFO @ Wed, 22 Jul 2020 15:07:49: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:07:49: #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 15:07:49: #1 tags after filtering in treatment: 1623641 INFO @ Wed, 22 Jul 2020 15:07:49: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 15:07:49: #1 finished! INFO @ Wed, 22 Jul 2020 15:07:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:07:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:07:49: #2 number of paired peaks: 86 WARNING @ Wed, 22 Jul 2020 15:07:49: Too few paired peaks (86) 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 15:07:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.10_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/SRX8462213/SRX8462213.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.10_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 15:07:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.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 15:07:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:07:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:08:03: 1000000 INFO @ Wed, 22 Jul 2020 15:08:09: 2000000 INFO @ Wed, 22 Jul 2020 15:08:14: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:08:18: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:08:18: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:08:18: #1 total tags in treatment: 1826404 INFO @ Wed, 22 Jul 2020 15:08:18: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:08:18: #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 15:08:18: #1 tags after filtering in treatment: 1623641 INFO @ Wed, 22 Jul 2020 15:08:18: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 15:08:18: #1 finished! INFO @ Wed, 22 Jul 2020 15:08:18: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:08:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:08:18: #2 number of paired peaks: 86 WARNING @ Wed, 22 Jul 2020 15:08:18: Too few paired peaks (86) 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 15:08:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.20_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/SRX8462213/SRX8462213.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462213/SRX8462213.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。