Job ID = 7114834 SRX = SRX8462214 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:02:07 prefetch.2.10.7: 1) Downloading 'SRR11915673'... 2020-07-22T06:02:07 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:02:43 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:02:43 prefetch.2.10.7: 'SRR11915673' is valid 2020-07-22T06:02:43 prefetch.2.10.7: 1) 'SRR11915673' was downloaded successfully 2020-07-22T06:02:43 prefetch.2.10.7: 'SRR11915673' has 0 unresolved dependencies Read 2178162 spots for SRR11915673/SRR11915673.sra Written 2178162 spots for SRR11915673/SRR11915673.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: 00:01:54 2178162 reads; of these: 2178162 (100.00%) were paired; of these: 114449 (5.25%) aligned concordantly 0 times 1790270 (82.19%) aligned concordantly exactly 1 time 273443 (12.55%) aligned concordantly >1 times ---- 114449 pairs aligned concordantly 0 times; of these: 10254 (8.96%) aligned discordantly 1 time ---- 104195 pairs aligned 0 times concordantly or discordantly; of these: 208390 mates make up the pairs; of these: 160120 (76.84%) aligned 0 times 38216 (18.34%) aligned exactly 1 time 10054 (4.82%) aligned >1 times 96.32% overall alignment rate Time searching: 00:01:54 Overall time: 00:01:54 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] 198235 / 2068585 = 0.0958 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 15:06:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.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 15:06:43: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:06:43: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:06:49: 1000000 INFO @ Wed, 22 Jul 2020 15:06:55: 2000000 INFO @ Wed, 22 Jul 2020 15:07:01: 3000000 INFO @ Wed, 22 Jul 2020 15:07:06: #1 tag size is determined as 74 bps INFO @ Wed, 22 Jul 2020 15:07:06: #1 tag size = 74 INFO @ Wed, 22 Jul 2020 15:07:06: #1 total tags in treatment: 1865684 INFO @ Wed, 22 Jul 2020 15:07:06: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:07:06: #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 15:07:06: #1 tags after filtering in treatment: 1667155 INFO @ Wed, 22 Jul 2020 15:07:06: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 15:07:06: #1 finished! INFO @ Wed, 22 Jul 2020 15:07:06: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:07:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:07:06: #2 number of paired peaks: 73 WARNING @ Wed, 22 Jul 2020 15:07:06: Too few paired peaks (73) 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 15:07:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.05_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/SRX8462214/SRX8462214.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.05_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 15:07:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.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 15:07:13: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:07:13: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:07:18: 1000000 INFO @ Wed, 22 Jul 2020 15:07:24: 2000000 INFO @ Wed, 22 Jul 2020 15:07:29: 3000000 INFO @ Wed, 22 Jul 2020 15:07:34: #1 tag size is determined as 74 bps INFO @ Wed, 22 Jul 2020 15:07:34: #1 tag size = 74 INFO @ Wed, 22 Jul 2020 15:07:34: #1 total tags in treatment: 1865684 INFO @ Wed, 22 Jul 2020 15:07:34: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:07:34: #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 15:07:34: #1 tags after filtering in treatment: 1667155 INFO @ Wed, 22 Jul 2020 15:07:34: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 15:07:34: #1 finished! INFO @ Wed, 22 Jul 2020 15:07:34: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:07:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:07:34: #2 number of paired peaks: 73 WARNING @ Wed, 22 Jul 2020 15:07:34: Too few paired peaks (73) 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 15:07:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.10_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 15:07:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.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 15:07:43: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:07:43: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:07:50: 1000000 INFO @ Wed, 22 Jul 2020 15:07:56: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:08:03: 3000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:08:09: #1 tag size is determined as 74 bps INFO @ Wed, 22 Jul 2020 15:08:09: #1 tag size = 74 INFO @ Wed, 22 Jul 2020 15:08:09: #1 total tags in treatment: 1865684 INFO @ Wed, 22 Jul 2020 15:08:09: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:08:09: #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 15:08:09: #1 tags after filtering in treatment: 1667155 INFO @ Wed, 22 Jul 2020 15:08:09: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 15:08:09: #1 finished! INFO @ Wed, 22 Jul 2020 15:08:09: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:08:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:08:09: #2 number of paired peaks: 73 WARNING @ Wed, 22 Jul 2020 15:08:09: Too few paired peaks (73) 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 15:08:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.20_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/SRX8462214/SRX8462214.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462214/SRX8462214.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling