Job ID = 14521163 SRX = SRX10468504 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4959078 spots for SRR14094815/SRR14094815.sra Written 4959078 spots for SRR14094815/SRR14094815.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: 00:04:05 4959078 reads; of these: 4959078 (100.00%) were paired; of these: 711897 (14.36%) aligned concordantly 0 times 3676564 (74.14%) aligned concordantly exactly 1 time 570617 (11.51%) aligned concordantly >1 times ---- 711897 pairs aligned concordantly 0 times; of these: 63323 (8.89%) aligned discordantly 1 time ---- 648574 pairs aligned 0 times concordantly or discordantly; of these: 1297148 mates make up the pairs; of these: 1211196 (93.37%) aligned 0 times 52199 (4.02%) aligned exactly 1 time 33753 (2.60%) aligned >1 times 87.79% overall alignment rate Time searching: 00:04:05 Overall time: 00:04:05 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] 130844 / 4269891 = 0.0306 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 20:39:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.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 20:39:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:39:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:39:51: 1000000 INFO @ Sat, 15 Jan 2022 20:39:59: 2000000 INFO @ Sat, 15 Jan 2022 20:40:07: 3000000 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 20:40:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.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 20:40:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:40:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:40:15: 4000000 INFO @ Sat, 15 Jan 2022 20:40:21: 1000000 INFO @ Sat, 15 Jan 2022 20:40:23: 5000000 INFO @ Sat, 15 Jan 2022 20:40:29: 2000000 INFO @ Sat, 15 Jan 2022 20:40:31: 6000000 INFO @ Sat, 15 Jan 2022 20:40:36: 3000000 INFO @ Sat, 15 Jan 2022 20:40:39: 7000000 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 20:40:43: 4000000 INFO @ Sat, 15 Jan 2022 20:40:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.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 20:40:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:40:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:40:47: 8000000 INFO @ Sat, 15 Jan 2022 20:40:51: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:40:51: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:40:51: #1 total tags in treatment: 4116748 INFO @ Sat, 15 Jan 2022 20:40:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:40:51: #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 20:40:51: #1 tags after filtering in treatment: 3528866 INFO @ Sat, 15 Jan 2022 20:40:51: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 20:40:51: #1 finished! INFO @ Sat, 15 Jan 2022 20:40:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:40:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:40:51: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 20:40:51: Too few paired peaks (32) 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 20:40:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 20:40:51: 5000000 pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:40:52: 1000000 INFO @ Sat, 15 Jan 2022 20:40:58: 6000000 INFO @ Sat, 15 Jan 2022 20:41:01: 2000000 INFO @ Sat, 15 Jan 2022 20:41:05: 7000000 INFO @ Sat, 15 Jan 2022 20:41:10: 3000000 INFO @ Sat, 15 Jan 2022 20:41:12: 8000000 INFO @ Sat, 15 Jan 2022 20:41:15: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:41:15: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:41:15: #1 total tags in treatment: 4116748 INFO @ Sat, 15 Jan 2022 20:41:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:41:15: #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 20:41:15: #1 tags after filtering in treatment: 3528866 INFO @ Sat, 15 Jan 2022 20:41:15: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 20:41:15: #1 finished! INFO @ Sat, 15 Jan 2022 20:41:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:41:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:41:15: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 20:41:15: Too few paired peaks (32) 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 20:41:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.10_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/SRX10468504/SRX10468504.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:41:18: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:41:26: 5000000 INFO @ Sat, 15 Jan 2022 20:41:34: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:41:41: 7000000 INFO @ Sat, 15 Jan 2022 20:41:49: 8000000 INFO @ Sat, 15 Jan 2022 20:41:52: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:41:52: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:41:52: #1 total tags in treatment: 4116748 INFO @ Sat, 15 Jan 2022 20:41:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:41:52: #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 20:41:53: #1 tags after filtering in treatment: 3528866 INFO @ Sat, 15 Jan 2022 20:41:53: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 20:41:53: #1 finished! INFO @ Sat, 15 Jan 2022 20:41:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:41:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:41:53: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 20:41:53: Too few paired peaks (32) 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 20:41:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.20_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/SRX10468504/SRX10468504.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468504/SRX10468504.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling