Job ID = 14521421 SRX = SRX8952663 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4815155 spots for SRR12458223/SRR12458223.sra Written 4815155 spots for SRR12458223/SRR12458223.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: 00:11:03 4815155 reads; of these: 4815155 (100.00%) were paired; of these: 4138122 (85.94%) aligned concordantly 0 times 305099 (6.34%) aligned concordantly exactly 1 time 371934 (7.72%) aligned concordantly >1 times ---- 4138122 pairs aligned concordantly 0 times; of these: 2445 (0.06%) aligned discordantly 1 time ---- 4135677 pairs aligned 0 times concordantly or discordantly; of these: 8271354 mates make up the pairs; of these: 3709347 (44.85%) aligned 0 times 795940 (9.62%) aligned exactly 1 time 3766067 (45.53%) aligned >1 times 61.48% overall alignment rate Time searching: 00:11:03 Overall time: 00:11:03 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] 457982 / 676213 = 0.6773 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 21:10:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.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 21:10:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:10:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:10:17: 1000000 INFO @ Sat, 15 Jan 2022 21:10:20: 2000000 INFO @ Sat, 15 Jan 2022 21:10:23: 3000000 INFO @ Sat, 15 Jan 2022 21:10:26: 4000000 INFO @ Sat, 15 Jan 2022 21:10:29: 5000000 INFO @ Sat, 15 Jan 2022 21:10:29: #1 tag size is determined as 13 bps INFO @ Sat, 15 Jan 2022 21:10:29: #1 tag size = 13 INFO @ Sat, 15 Jan 2022 21:10:29: #1 total tags in treatment: 219057 INFO @ Sat, 15 Jan 2022 21:10:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:10:29: #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 21:10:30: #1 tags after filtering in treatment: 147395 INFO @ Sat, 15 Jan 2022 21:10:30: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:10:30: #1 finished! INFO @ Sat, 15 Jan 2022 21:10:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:10:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:10:30: #2 number of paired peaks: 88 WARNING @ Sat, 15 Jan 2022 21:10:30: Too few paired peaks (88) 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 21:10:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.05_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/SRX8952663/SRX8952663.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.05_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 21:10:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.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 21:10:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:10:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:10:47: 1000000 INFO @ Sat, 15 Jan 2022 21:10:51: 2000000 INFO @ Sat, 15 Jan 2022 21:10:55: 3000000 INFO @ Sat, 15 Jan 2022 21:10:58: 4000000 INFO @ Sat, 15 Jan 2022 21:11:01: 5000000 INFO @ Sat, 15 Jan 2022 21:11:01: #1 tag size is determined as 13 bps INFO @ Sat, 15 Jan 2022 21:11:01: #1 tag size = 13 INFO @ Sat, 15 Jan 2022 21:11:01: #1 total tags in treatment: 219057 INFO @ Sat, 15 Jan 2022 21:11:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:11:01: #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 21:11:01: #1 tags after filtering in treatment: 147395 INFO @ Sat, 15 Jan 2022 21:11:01: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:11:01: #1 finished! INFO @ Sat, 15 Jan 2022 21:11:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:11:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:11:01: #2 number of paired peaks: 88 WARNING @ Sat, 15 Jan 2022 21:11:01: Too few paired peaks (88) 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 21:11:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.10_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/SRX8952663/SRX8952663.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.10_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 21:11:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.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 21:11:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:11:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:11:17: 1000000 INFO @ Sat, 15 Jan 2022 21:11:21: 2000000 INFO @ Sat, 15 Jan 2022 21:11:24: 3000000 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 21:11:28: 4000000 INFO @ Sat, 15 Jan 2022 21:11:31: 5000000 INFO @ Sat, 15 Jan 2022 21:11:31: #1 tag size is determined as 13 bps INFO @ Sat, 15 Jan 2022 21:11:31: #1 tag size = 13 INFO @ Sat, 15 Jan 2022 21:11:31: #1 total tags in treatment: 219057 INFO @ Sat, 15 Jan 2022 21:11:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:11:31: #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 21:11:31: #1 tags after filtering in treatment: 147395 INFO @ Sat, 15 Jan 2022 21:11:31: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:11:31: #1 finished! INFO @ Sat, 15 Jan 2022 21:11:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:11:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:11:31: #2 number of paired peaks: 88 WARNING @ Sat, 15 Jan 2022 21:11:31: Too few paired peaks (88) 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 21:11:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.20_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/SRX8952663/SRX8952663.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952663/SRX8952663.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling