Job ID = 14520567 SRX = SRX11781062 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:22:36 prefetch.2.10.7: 1) Downloading 'SRR15481005'... 2022-01-15T10:22:36 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:23:10 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:23:11 prefetch.2.10.7: 'SRR15481005' is valid 2022-01-15T10:23:11 prefetch.2.10.7: 1) 'SRR15481005' was downloaded successfully 2022-01-15T10:23:11 prefetch.2.10.7: 'SRR15481005' has 0 unresolved dependencies Read 7476724 spots for SRR15481005/SRR15481005.sra Written 7476724 spots for SRR15481005/SRR15481005.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: 00:05:10 7476724 reads; of these: 7476724 (100.00%) were paired; of these: 2806667 (37.54%) aligned concordantly 0 times 4533956 (60.64%) aligned concordantly exactly 1 time 136101 (1.82%) aligned concordantly >1 times ---- 2806667 pairs aligned concordantly 0 times; of these: 418372 (14.91%) aligned discordantly 1 time ---- 2388295 pairs aligned 0 times concordantly or discordantly; of these: 4776590 mates make up the pairs; of these: 3274173 (68.55%) aligned 0 times 1428295 (29.90%) aligned exactly 1 time 74122 (1.55%) aligned >1 times 78.10% overall alignment rate Time searching: 00:05:10 Overall time: 00:05:10 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] 1814572 / 5050473 = 0.3593 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 19:33:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.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 19:33:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:33:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:33:11: 1000000 INFO @ Sat, 15 Jan 2022 19:33:19: 2000000 INFO @ Sat, 15 Jan 2022 19:33:26: 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 19:33:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.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 19:33:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:33:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:33:34: 4000000 INFO @ Sat, 15 Jan 2022 19:33:42: 1000000 INFO @ Sat, 15 Jan 2022 19:33:42: 5000000 INFO @ Sat, 15 Jan 2022 19:33:49: 2000000 INFO @ Sat, 15 Jan 2022 19:33:51: 6000000 INFO @ Sat, 15 Jan 2022 19:33:56: 3000000 INFO @ Sat, 15 Jan 2022 19:33:59: 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 19:34:04: 4000000 INFO @ Sat, 15 Jan 2022 19:34:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.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 19:34:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:34:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:34:07: 8000000 INFO @ Sat, 15 Jan 2022 19:34:07: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:34:07: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:34:07: #1 total tags in treatment: 3053285 INFO @ Sat, 15 Jan 2022 19:34:07: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:34:07: #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 19:34:07: #1 tags after filtering in treatment: 253195 INFO @ Sat, 15 Jan 2022 19:34:07: #1 Redundant rate of treatment: 0.92 INFO @ Sat, 15 Jan 2022 19:34:07: #1 finished! INFO @ Sat, 15 Jan 2022 19:34:07: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:34:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:34:07: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 19:34:07: Too few paired peaks (17) 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 19:34:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.05_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/SRX11781062/SRX11781062.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:34:11: 5000000 INFO @ Sat, 15 Jan 2022 19:34:12: 1000000 INFO @ Sat, 15 Jan 2022 19:34:18: 6000000 INFO @ Sat, 15 Jan 2022 19:34:19: 2000000 INFO @ Sat, 15 Jan 2022 19:34:25: 7000000 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:34:26: 3000000 INFO @ Sat, 15 Jan 2022 19:34:32: 8000000 INFO @ Sat, 15 Jan 2022 19:34:33: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:34:33: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:34:33: #1 total tags in treatment: 3053285 INFO @ Sat, 15 Jan 2022 19:34:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:34:33: #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 19:34:33: #1 tags after filtering in treatment: 253195 INFO @ Sat, 15 Jan 2022 19:34:33: #1 Redundant rate of treatment: 0.92 INFO @ Sat, 15 Jan 2022 19:34:33: #1 finished! INFO @ Sat, 15 Jan 2022 19:34:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:34:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:34:33: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 19:34:33: Too few paired peaks (17) 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 19:34:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:34:33: 4000000 INFO @ Sat, 15 Jan 2022 19:34:39: 5000000 INFO @ Sat, 15 Jan 2022 19:34:45: 6000000 INFO @ Sat, 15 Jan 2022 19:34:51: 7000000 INFO @ Sat, 15 Jan 2022 19:34:56: 8000000 INFO @ Sat, 15 Jan 2022 19:34:57: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:34:57: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:34:57: #1 total tags in treatment: 3053285 INFO @ Sat, 15 Jan 2022 19:34:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:34:57: #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 19:34:57: #1 tags after filtering in treatment: 253195 INFO @ Sat, 15 Jan 2022 19:34:57: #1 Redundant rate of treatment: 0.92 INFO @ Sat, 15 Jan 2022 19:34:57: #1 finished! INFO @ Sat, 15 Jan 2022 19:34:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:34:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:34:57: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 19:34:57: Too few paired peaks (17) 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 19:34:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.20_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/SRX11781062/SRX11781062.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781062/SRX11781062.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling