Job ID = 14519746 SRX = SRX9067197 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7119397 spots for SRR12580350/SRR12580350.sra Written 7119397 spots for SRR12580350/SRR12580350.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: 00:03:48 7119397 reads; of these: 7119397 (100.00%) were paired; of these: 1252123 (17.59%) aligned concordantly 0 times 5318367 (74.70%) aligned concordantly exactly 1 time 548907 (7.71%) aligned concordantly >1 times ---- 1252123 pairs aligned concordantly 0 times; of these: 139314 (11.13%) aligned discordantly 1 time ---- 1112809 pairs aligned 0 times concordantly or discordantly; of these: 2225618 mates make up the pairs; of these: 1913589 (85.98%) aligned 0 times 247849 (11.14%) aligned exactly 1 time 64180 (2.88%) aligned >1 times 86.56% overall alignment rate Time searching: 00:03:48 Overall time: 00:03:48 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_sort_core] merging from 8 files... [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] 909178 / 5993827 = 0.1517 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 17:45:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.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 17:45:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:45:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:45:09: 1000000 INFO @ Sat, 15 Jan 2022 17:45:16: 2000000 INFO @ Sat, 15 Jan 2022 17:45:22: 3000000 INFO @ Sat, 15 Jan 2022 17:45:28: 4000000 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 17:45:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.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 17:45:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:45:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:45:35: 5000000 INFO @ Sat, 15 Jan 2022 17:45:40: 1000000 INFO @ Sat, 15 Jan 2022 17:45:41: 6000000 INFO @ Sat, 15 Jan 2022 17:45:47: 7000000 INFO @ Sat, 15 Jan 2022 17:45:47: 2000000 INFO @ Sat, 15 Jan 2022 17:45:53: 8000000 INFO @ Sat, 15 Jan 2022 17:45:54: 3000000 INFO @ Sat, 15 Jan 2022 17:45:59: 9000000 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 17:46:01: 4000000 INFO @ Sat, 15 Jan 2022 17:46:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.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 17:46:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:46:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:46:06: 10000000 INFO @ Sat, 15 Jan 2022 17:46:08: 5000000 INFO @ Sat, 15 Jan 2022 17:46:09: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:46:09: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:46:09: #1 total tags in treatment: 4969075 INFO @ Sat, 15 Jan 2022 17:46:09: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:46:09: #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 17:46:09: #1 tags after filtering in treatment: 3381369 INFO @ Sat, 15 Jan 2022 17:46:09: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 17:46:09: #1 finished! INFO @ Sat, 15 Jan 2022 17:46:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:46:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:46:09: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:46:09: Too few paired peaks (0) 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 17:46:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.05_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/SRX9067197/SRX9067197.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:46:09: 1000000 INFO @ Sat, 15 Jan 2022 17:46:15: 6000000 INFO @ Sat, 15 Jan 2022 17:46:16: 2000000 INFO @ Sat, 15 Jan 2022 17:46:21: 7000000 INFO @ Sat, 15 Jan 2022 17:46:23: 3000000 INFO @ Sat, 15 Jan 2022 17:46:28: 8000000 INFO @ Sat, 15 Jan 2022 17:46:30: 4000000 INFO @ Sat, 15 Jan 2022 17:46:35: 9000000 INFO @ Sat, 15 Jan 2022 17:46:37: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:46:42: 10000000 INFO @ Sat, 15 Jan 2022 17:46:44: 6000000 INFO @ Sat, 15 Jan 2022 17:46:45: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:46:45: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:46:45: #1 total tags in treatment: 4969075 INFO @ Sat, 15 Jan 2022 17:46:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:46:45: #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 17:46:45: #1 tags after filtering in treatment: 3381369 INFO @ Sat, 15 Jan 2022 17:46:45: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 17:46:45: #1 finished! INFO @ Sat, 15 Jan 2022 17:46:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:46:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:46:46: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:46:46: Too few paired peaks (0) 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 17:46:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.10_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/SRX9067197/SRX9067197.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:46:51: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:46:58: 8000000 INFO @ Sat, 15 Jan 2022 17:47:05: 9000000 INFO @ Sat, 15 Jan 2022 17:47:13: 10000000 INFO @ Sat, 15 Jan 2022 17:47:16: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:47:16: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:47:16: #1 total tags in treatment: 4969075 INFO @ Sat, 15 Jan 2022 17:47:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:47:16: #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 17:47:16: #1 tags after filtering in treatment: 3381369 INFO @ Sat, 15 Jan 2022 17:47:16: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 17:47:16: #1 finished! INFO @ Sat, 15 Jan 2022 17:47:16: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:47:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:47:16: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:47:16: Too few paired peaks (0) 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 17:47:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.20_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/SRX9067197/SRX9067197.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067197/SRX9067197.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling