Job ID = 14520456 SRX = SRX11781036 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:08:21 prefetch.2.10.7: 1) Downloading 'SRR15480979'... 2022-01-15T10:08:21 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:08:44 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:08:44 prefetch.2.10.7: 'SRR15480979' is valid 2022-01-15T10:08:44 prefetch.2.10.7: 1) 'SRR15480979' was downloaded successfully 2022-01-15T10:08:44 prefetch.2.10.7: 'SRR15480979' has 0 unresolved dependencies Read 4944311 spots for SRR15480979/SRR15480979.sra Written 4944311 spots for SRR15480979/SRR15480979.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: 00:04:24 4944311 reads; of these: 4944311 (100.00%) were paired; of these: 3396805 (68.70%) aligned concordantly 0 times 1485444 (30.04%) aligned concordantly exactly 1 time 62062 (1.26%) aligned concordantly >1 times ---- 3396805 pairs aligned concordantly 0 times; of these: 158548 (4.67%) aligned discordantly 1 time ---- 3238257 pairs aligned 0 times concordantly or discordantly; of these: 6476514 mates make up the pairs; of these: 4187519 (64.66%) aligned 0 times 2231093 (34.45%) aligned exactly 1 time 57902 (0.89%) aligned >1 times 57.65% overall alignment rate Time searching: 00:04:24 Overall time: 00:04:24 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] 417912 / 1692225 = 0.2470 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:16:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.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 @ Sat, 15 Jan 2022 19:16:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:16:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:16:42: 1000000 INFO @ Sat, 15 Jan 2022 19:16:47: 2000000 INFO @ Sat, 15 Jan 2022 19:16:53: 3000000 INFO @ Sat, 15 Jan 2022 19:16:58: 4000000 INFO @ Sat, 15 Jan 2022 19:17:03: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:17:03: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:17:03: #1 total tags in treatment: 1166172 INFO @ Sat, 15 Jan 2022 19:17:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:17:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:17:03: #1 tags after filtering in treatment: 188543 INFO @ Sat, 15 Jan 2022 19:17:03: #1 Redundant rate of treatment: 0.84 INFO @ Sat, 15 Jan 2022 19:17:03: #1 finished! INFO @ Sat, 15 Jan 2022 19:17:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:17:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:17:03: #2 number of paired peaks: 38 WARNING @ Sat, 15 Jan 2022 19:17:03: Too few paired peaks (38) 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 @ Sat, 15 Jan 2022 19:17:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.05_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/SRX11781036/SRX11781036.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:17:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.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 @ Sat, 15 Jan 2022 19:17:06: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:17:06: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:17:12: 1000000 INFO @ Sat, 15 Jan 2022 19:17:17: 2000000 INFO @ Sat, 15 Jan 2022 19:17:22: 3000000 INFO @ Sat, 15 Jan 2022 19:17:28: 4000000 INFO @ Sat, 15 Jan 2022 19:17:32: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:17:32: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:17:32: #1 total tags in treatment: 1166172 INFO @ Sat, 15 Jan 2022 19:17:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:17:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:17:32: #1 tags after filtering in treatment: 188543 INFO @ Sat, 15 Jan 2022 19:17:32: #1 Redundant rate of treatment: 0.84 INFO @ Sat, 15 Jan 2022 19:17:32: #1 finished! INFO @ Sat, 15 Jan 2022 19:17:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:17:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:17:32: #2 number of paired peaks: 38 WARNING @ Sat, 15 Jan 2022 19:17:32: Too few paired peaks (38) 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 @ Sat, 15 Jan 2022 19:17:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.10_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/SRX11781036/SRX11781036.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:17:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.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 @ Sat, 15 Jan 2022 19:17:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:17:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:17:42: 1000000 INFO @ Sat, 15 Jan 2022 19:17:47: 2000000 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:17:52: 3000000 INFO @ Sat, 15 Jan 2022 19:17:58: 4000000 INFO @ Sat, 15 Jan 2022 19:18:02: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:18:02: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:18:02: #1 total tags in treatment: 1166172 INFO @ Sat, 15 Jan 2022 19:18:02: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:18:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:18:02: #1 tags after filtering in treatment: 188543 INFO @ Sat, 15 Jan 2022 19:18:02: #1 Redundant rate of treatment: 0.84 INFO @ Sat, 15 Jan 2022 19:18:02: #1 finished! INFO @ Sat, 15 Jan 2022 19:18:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:18:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:18:02: #2 number of paired peaks: 38 WARNING @ Sat, 15 Jan 2022 19:18:02: Too few paired peaks (38) 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 @ Sat, 15 Jan 2022 19:18:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.20_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/SRX11781036/SRX11781036.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781036/SRX11781036.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling