Job ID = 14520787 SRX = SRX8245405 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6552296 spots for SRR11684616/SRR11684616.sra Written 6552296 spots for SRR11684616/SRR11684616.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: 00:03:34 6552296 reads; of these: 6552296 (100.00%) were paired; of these: 3244330 (49.51%) aligned concordantly 0 times 3005475 (45.87%) aligned concordantly exactly 1 time 302491 (4.62%) aligned concordantly >1 times ---- 3244330 pairs aligned concordantly 0 times; of these: 51638 (1.59%) aligned discordantly 1 time ---- 3192692 pairs aligned 0 times concordantly or discordantly; of these: 6385384 mates make up the pairs; of these: 3479188 (54.49%) aligned 0 times 2609345 (40.86%) aligned exactly 1 time 296851 (4.65%) aligned >1 times 73.45% overall alignment rate Time searching: 00:03:34 Overall time: 00:03:34 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] 12617 / 3358966 = 0.0038 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 19:59:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.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 19:59:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:59:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:59:38: 1000000 INFO @ Sat, 15 Jan 2022 19:59:42: 2000000 INFO @ Sat, 15 Jan 2022 19:59:47: 3000000 INFO @ Sat, 15 Jan 2022 19:59:52: 4000000 INFO @ Sat, 15 Jan 2022 19:59:56: 5000000 INFO @ Sat, 15 Jan 2022 20:00:01: 6000000 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 20:00:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.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 20:00:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:00:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:00:06: 7000000 INFO @ Sat, 15 Jan 2022 20:00:08: 1000000 INFO @ Sat, 15 Jan 2022 20:00:11: 8000000 INFO @ Sat, 15 Jan 2022 20:00:13: 2000000 INFO @ Sat, 15 Jan 2022 20:00:16: 9000000 INFO @ Sat, 15 Jan 2022 20:00:18: 3000000 INFO @ Sat, 15 Jan 2022 20:00:19: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:00:19: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:00:19: #1 total tags in treatment: 3295400 INFO @ Sat, 15 Jan 2022 20:00:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:00:19: #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 20:00:19: #1 tags after filtering in treatment: 2891235 INFO @ Sat, 15 Jan 2022 20:00:19: #1 Redundant rate of treatment: 0.12 INFO @ Sat, 15 Jan 2022 20:00:19: #1 finished! INFO @ Sat, 15 Jan 2022 20:00:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:00:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:00:19: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:00:19: 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 20:00:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.05_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/SRX8245405/SRX8245405.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:00:23: 4000000 INFO @ Sat, 15 Jan 2022 20:00:28: 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 20:00:33: 6000000 INFO @ Sat, 15 Jan 2022 20:00:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.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 20:00:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:00:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:00:38: 7000000 INFO @ Sat, 15 Jan 2022 20:00:39: 1000000 INFO @ Sat, 15 Jan 2022 20:00:43: 8000000 INFO @ Sat, 15 Jan 2022 20:00:45: 2000000 INFO @ Sat, 15 Jan 2022 20:00:49: 9000000 INFO @ Sat, 15 Jan 2022 20:00:52: 3000000 INFO @ Sat, 15 Jan 2022 20:00:52: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:00:52: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:00:52: #1 total tags in treatment: 3295400 INFO @ Sat, 15 Jan 2022 20:00:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:00:52: #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 20:00:52: #1 tags after filtering in treatment: 2891235 INFO @ Sat, 15 Jan 2022 20:00:52: #1 Redundant rate of treatment: 0.12 INFO @ Sat, 15 Jan 2022 20:00:52: #1 finished! INFO @ Sat, 15 Jan 2022 20:00:52: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:00:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:00:52: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:00:52: 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 20:00:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.10_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/SRX8245405/SRX8245405.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:00:57: 4000000 INFO @ Sat, 15 Jan 2022 20:01:03: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:01:09: 6000000 INFO @ Sat, 15 Jan 2022 20:01:15: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:01:21: 8000000 INFO @ Sat, 15 Jan 2022 20:01:26: 9000000 INFO @ Sat, 15 Jan 2022 20:01:30: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:01:30: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:01:30: #1 total tags in treatment: 3295400 INFO @ Sat, 15 Jan 2022 20:01:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:01:30: #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 20:01:30: #1 tags after filtering in treatment: 2891235 INFO @ Sat, 15 Jan 2022 20:01:30: #1 Redundant rate of treatment: 0.12 INFO @ Sat, 15 Jan 2022 20:01:30: #1 finished! INFO @ Sat, 15 Jan 2022 20:01:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:01:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:01:30: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:01:30: 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 20:01:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.20_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/SRX8245405/SRX8245405.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245405/SRX8245405.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling