Job ID = 14522137 SRX = SRX9067152 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3969939 spots for SRR12580305/SRR12580305.sra Written 3969939 spots for SRR12580305/SRR12580305.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: 00:01:59 3969939 reads; of these: 3969939 (100.00%) were paired; of these: 965371 (24.32%) aligned concordantly 0 times 2552709 (64.30%) aligned concordantly exactly 1 time 451859 (11.38%) aligned concordantly >1 times ---- 965371 pairs aligned concordantly 0 times; of these: 179415 (18.59%) aligned discordantly 1 time ---- 785956 pairs aligned 0 times concordantly or discordantly; of these: 1571912 mates make up the pairs; of these: 1282318 (81.58%) aligned 0 times 195886 (12.46%) aligned exactly 1 time 93708 (5.96%) aligned >1 times 83.85% overall alignment rate Time searching: 00:01:59 Overall time: 00:01:59 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] 282838 / 3056720 = 0.0925 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 22:17:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.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 22:17:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:17:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:18:00: 1000000 INFO @ Sat, 15 Jan 2022 22:18:05: 2000000 INFO @ Sat, 15 Jan 2022 22:18:10: 3000000 INFO @ Sat, 15 Jan 2022 22:18:15: 4000000 INFO @ Sat, 15 Jan 2022 22:18:20: 5000000 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 22:18:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.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 22:18:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:18:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:18:26: 6000000 INFO @ Sat, 15 Jan 2022 22:18:26: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 22:18:26: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 22:18:26: #1 total tags in treatment: 2723069 INFO @ Sat, 15 Jan 2022 22:18:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:18:26: #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 22:18:26: #1 tags after filtering in treatment: 2067094 INFO @ Sat, 15 Jan 2022 22:18:26: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 22:18:26: #1 finished! INFO @ Sat, 15 Jan 2022 22:18:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:18:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:18:26: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:18:26: Too few paired peaks (27) 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 22:18:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.05_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/SRX9067152/SRX9067152.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:18:30: 1000000 INFO @ Sat, 15 Jan 2022 22:18:35: 2000000 INFO @ Sat, 15 Jan 2022 22:18:41: 3000000 INFO @ Sat, 15 Jan 2022 22:18:46: 4000000 INFO @ Sat, 15 Jan 2022 22:18:51: 5000000 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 22:18:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.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 22:18:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:18:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:18:57: 6000000 INFO @ Sat, 15 Jan 2022 22:18:57: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 22:18:57: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 22:18:57: #1 total tags in treatment: 2723069 INFO @ Sat, 15 Jan 2022 22:18:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:18:57: #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 22:18:57: #1 tags after filtering in treatment: 2067094 INFO @ Sat, 15 Jan 2022 22:18:57: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 22:18:57: #1 finished! INFO @ Sat, 15 Jan 2022 22:18:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:18:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:18:57: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:18:57: Too few paired peaks (27) 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 22:18:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.10_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/SRX9067152/SRX9067152.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:19:00: 1000000 INFO @ Sat, 15 Jan 2022 22:19:05: 2000000 INFO @ Sat, 15 Jan 2022 22:19:10: 3000000 INFO @ Sat, 15 Jan 2022 22:19:15: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:19:20: 5000000 INFO @ Sat, 15 Jan 2022 22:19:25: 6000000 INFO @ Sat, 15 Jan 2022 22:19:26: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 22:19:26: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 22:19:26: #1 total tags in treatment: 2723069 INFO @ Sat, 15 Jan 2022 22:19:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:19:26: #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 22:19:26: #1 tags after filtering in treatment: 2067094 INFO @ Sat, 15 Jan 2022 22:19:26: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 22:19:26: #1 finished! INFO @ Sat, 15 Jan 2022 22:19:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:19:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:19:26: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:19:26: Too few paired peaks (27) 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 22:19:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.20_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/SRX9067152/SRX9067152.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067152/SRX9067152.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。