Job ID = 14521402 SRX = SRX10828574 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3537667 spots for SRR14480399/SRR14480399.sra Written 3537667 spots for SRR14480399/SRR14480399.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: 00:01:49 3537667 reads; of these: 3537667 (100.00%) were paired; of these: 437923 (12.38%) aligned concordantly 0 times 2783852 (78.69%) aligned concordantly exactly 1 time 315892 (8.93%) aligned concordantly >1 times ---- 437923 pairs aligned concordantly 0 times; of these: 77093 (17.60%) aligned discordantly 1 time ---- 360830 pairs aligned 0 times concordantly or discordantly; of these: 721660 mates make up the pairs; of these: 619403 (85.83%) aligned 0 times 74446 (10.32%) aligned exactly 1 time 27811 (3.85%) aligned >1 times 91.25% overall alignment rate Time searching: 00:01:49 Overall time: 00:01:49 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] 430886 / 3135940 = 0.1374 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 20:59:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.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 20:59:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:59:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:59:57: 1000000 INFO @ Sat, 15 Jan 2022 21:00:01: 2000000 INFO @ Sat, 15 Jan 2022 21:00:06: 3000000 INFO @ Sat, 15 Jan 2022 21:00:11: 4000000 INFO @ Sat, 15 Jan 2022 21:00:16: 5000000 INFO @ Sat, 15 Jan 2022 21:00:19: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:00:19: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:00:19: #1 total tags in treatment: 2671708 INFO @ Sat, 15 Jan 2022 21:00:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:00:19: #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 21:00:19: #1 tags after filtering in treatment: 2001060 INFO @ Sat, 15 Jan 2022 21:00:19: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 21:00:19: #1 finished! INFO @ Sat, 15 Jan 2022 21:00:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:00:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:00:19: #2 number of paired peaks: 16 WARNING @ Sat, 15 Jan 2022 21:00:19: Too few paired peaks (16) 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 21:00:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.05_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/SRX10828574/SRX10828574.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.05_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 21:00:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.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 21:00:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:00:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:00:27: 1000000 INFO @ Sat, 15 Jan 2022 21:00:31: 2000000 INFO @ Sat, 15 Jan 2022 21:00:36: 3000000 INFO @ Sat, 15 Jan 2022 21:00:41: 4000000 INFO @ Sat, 15 Jan 2022 21:00:46: 5000000 INFO @ Sat, 15 Jan 2022 21:00:49: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:00:49: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:00:49: #1 total tags in treatment: 2671708 INFO @ Sat, 15 Jan 2022 21:00:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:00:49: #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 21:00:49: #1 tags after filtering in treatment: 2001060 INFO @ Sat, 15 Jan 2022 21:00:49: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 21:00:49: #1 finished! INFO @ Sat, 15 Jan 2022 21:00:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:00:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:00:49: #2 number of paired peaks: 16 WARNING @ Sat, 15 Jan 2022 21:00:49: Too few paired peaks (16) 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 21:00:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis BedGraph に変換中... needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.10_model.r’: No such file or directory 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 rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:00:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.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 21:00:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:00:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:00:57: 1000000 INFO @ Sat, 15 Jan 2022 21:01:02: 2000000 INFO @ Sat, 15 Jan 2022 21:01:06: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:01:11: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:01:17: 5000000 INFO @ Sat, 15 Jan 2022 21:01:19: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:01:19: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:01:19: #1 total tags in treatment: 2671708 INFO @ Sat, 15 Jan 2022 21:01:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:01:19: #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 21:01:20: #1 tags after filtering in treatment: 2001060 INFO @ Sat, 15 Jan 2022 21:01:20: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 21:01:20: #1 finished! INFO @ Sat, 15 Jan 2022 21:01:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:01:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:01:20: #2 number of paired peaks: 16 WARNING @ Sat, 15 Jan 2022 21:01:20: Too few paired peaks (16) 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 21:01:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.20_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/SRX10828574/SRX10828574.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828574/SRX10828574.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling