Job ID = 14522066 SRX = SRX9067218 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5429999 spots for SRR12580371/SRR12580371.sra Written 5429999 spots for SRR12580371/SRR12580371.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: 00:02:49 5429999 reads; of these: 5429999 (100.00%) were paired; of these: 1623462 (29.90%) aligned concordantly 0 times 3372805 (62.11%) aligned concordantly exactly 1 time 433732 (7.99%) aligned concordantly >1 times ---- 1623462 pairs aligned concordantly 0 times; of these: 152095 (9.37%) aligned discordantly 1 time ---- 1471367 pairs aligned 0 times concordantly or discordantly; of these: 2942734 mates make up the pairs; of these: 2650245 (90.06%) aligned 0 times 226344 (7.69%) aligned exactly 1 time 66145 (2.25%) aligned >1 times 75.60% overall alignment rate Time searching: 00:02:49 Overall time: 00:02:49 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] 433800 / 3873697 = 0.1120 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 22:11:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.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 22:11:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:11:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:11:40: 1000000 INFO @ Sat, 15 Jan 2022 22:11:46: 2000000 INFO @ Sat, 15 Jan 2022 22:11:51: 3000000 INFO @ Sat, 15 Jan 2022 22:11:57: 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 22:12:03: 5000000 INFO @ Sat, 15 Jan 2022 22:12:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.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 22:12:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:12:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:12:08: 6000000 INFO @ Sat, 15 Jan 2022 22:12:10: 1000000 INFO @ Sat, 15 Jan 2022 22:12:14: 7000000 INFO @ Sat, 15 Jan 2022 22:12:16: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 22:12:16: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 22:12:16: #1 total tags in treatment: 3375679 INFO @ Sat, 15 Jan 2022 22:12:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:12:16: #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 22:12:16: #1 tags after filtering in treatment: 2504350 INFO @ Sat, 15 Jan 2022 22:12:16: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:12:16: #1 finished! INFO @ Sat, 15 Jan 2022 22:12:16: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:12:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:12:16: #2 number of paired peaks: 7 WARNING @ Sat, 15 Jan 2022 22:12:16: Too few paired peaks (7) 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 22:12:16: Process for pairing-model is terminated! INFO @ Sat, 15 Jan 2022 22:12:16: 2000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.05_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/SRX9067218/SRX9067218.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:12:22: 3000000 INFO @ Sat, 15 Jan 2022 22:12:28: 4000000 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 22:12:33: 5000000 INFO @ Sat, 15 Jan 2022 22:12:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.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 22:12:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:12:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:12:39: 6000000 INFO @ Sat, 15 Jan 2022 22:12:40: 1000000 INFO @ Sat, 15 Jan 2022 22:12:45: 7000000 INFO @ Sat, 15 Jan 2022 22:12:46: 2000000 INFO @ Sat, 15 Jan 2022 22:12:46: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 22:12:46: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 22:12:46: #1 total tags in treatment: 3375679 INFO @ Sat, 15 Jan 2022 22:12:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:12:46: #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 22:12:47: #1 tags after filtering in treatment: 2504350 INFO @ Sat, 15 Jan 2022 22:12:47: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:12:47: #1 finished! INFO @ Sat, 15 Jan 2022 22:12:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:12:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:12:47: #2 number of paired peaks: 7 WARNING @ Sat, 15 Jan 2022 22:12:47: Too few paired peaks (7) 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 22:12:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.10_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/SRX9067218/SRX9067218.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:12:52: 3000000 INFO @ Sat, 15 Jan 2022 22:12:58: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:13:05: 5000000 INFO @ Sat, 15 Jan 2022 22:13:11: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:13:17: 7000000 INFO @ Sat, 15 Jan 2022 22:13:19: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 22:13:19: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 22:13:19: #1 total tags in treatment: 3375679 INFO @ Sat, 15 Jan 2022 22:13:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:13:19: #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 22:13:19: #1 tags after filtering in treatment: 2504350 INFO @ Sat, 15 Jan 2022 22:13:19: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:13:19: #1 finished! INFO @ Sat, 15 Jan 2022 22:13:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:13:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:13:20: #2 number of paired peaks: 7 WARNING @ Sat, 15 Jan 2022 22:13:20: Too few paired peaks (7) 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 22:13:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.20_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/SRX9067218/SRX9067218.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067218/SRX9067218.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling