Job ID = 14520564 SRX = SRX11781060 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:22:02 prefetch.2.10.7: 1) Downloading 'SRR15481003'... 2022-01-15T10:22:02 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:22:47 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:22:48 prefetch.2.10.7: 'SRR15481003' is valid 2022-01-15T10:22:48 prefetch.2.10.7: 1) 'SRR15481003' was downloaded successfully 2022-01-15T10:22:48 prefetch.2.10.7: 'SRR15481003' has 0 unresolved dependencies Read 5765479 spots for SRR15481003/SRR15481003.sra Written 5765479 spots for SRR15481003/SRR15481003.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: 00:05:23 5765479 reads; of these: 5765479 (100.00%) were paired; of these: 2928923 (50.80%) aligned concordantly 0 times 2759324 (47.86%) aligned concordantly exactly 1 time 77232 (1.34%) aligned concordantly >1 times ---- 2928923 pairs aligned concordantly 0 times; of these: 225119 (7.69%) aligned discordantly 1 time ---- 2703804 pairs aligned 0 times concordantly or discordantly; of these: 5407608 mates make up the pairs; of these: 3452198 (63.84%) aligned 0 times 1893151 (35.01%) aligned exactly 1 time 62259 (1.15%) aligned >1 times 70.06% overall alignment rate Time searching: 00:05:23 Overall time: 00:05:23 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] 779808 / 3044681 = 0.2561 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 19:32:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.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 19:32:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:32:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:33:01: 1000000 INFO @ Sat, 15 Jan 2022 19:33:09: 2000000 INFO @ Sat, 15 Jan 2022 19:33:17: 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 19:33:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.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 19:33:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:33:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:33:26: 4000000 INFO @ Sat, 15 Jan 2022 19:33:31: 1000000 INFO @ Sat, 15 Jan 2022 19:33:35: 5000000 INFO @ Sat, 15 Jan 2022 19:33:39: 2000000 INFO @ Sat, 15 Jan 2022 19:33:43: 6000000 INFO @ Sat, 15 Jan 2022 19:33:47: 3000000 INFO @ Sat, 15 Jan 2022 19:33:47: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:33:47: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:33:47: #1 total tags in treatment: 2109791 INFO @ Sat, 15 Jan 2022 19:33:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:33:47: #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 19:33:47: #1 tags after filtering in treatment: 175301 INFO @ Sat, 15 Jan 2022 19:33:47: #1 Redundant rate of treatment: 0.92 INFO @ Sat, 15 Jan 2022 19:33:47: #1 finished! INFO @ Sat, 15 Jan 2022 19:33:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:33:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:33:47: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 19:33:47: Too few paired peaks (29) 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 19:33:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.05_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/SRX11781060/SRX11781060.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 19:33:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.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 19:33:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:33:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:33:55: 4000000 INFO @ Sat, 15 Jan 2022 19:34:01: 1000000 INFO @ Sat, 15 Jan 2022 19:34:03: 5000000 INFO @ Sat, 15 Jan 2022 19:34:09: 2000000 INFO @ Sat, 15 Jan 2022 19:34:11: 6000000 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 19:34:15: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:34:15: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:34:15: #1 total tags in treatment: 2109791 INFO @ Sat, 15 Jan 2022 19:34:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:34:15: #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 19:34:15: #1 tags after filtering in treatment: 175301 INFO @ Sat, 15 Jan 2022 19:34:15: #1 Redundant rate of treatment: 0.92 INFO @ Sat, 15 Jan 2022 19:34:15: #1 finished! INFO @ Sat, 15 Jan 2022 19:34:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:34:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:34:15: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 19:34:15: Too few paired peaks (29) 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 19:34:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 99 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:34:16: 3000000 INFO @ Sat, 15 Jan 2022 19:34:25: 4000000 INFO @ Sat, 15 Jan 2022 19:34:34: 5000000 INFO @ Sat, 15 Jan 2022 19:34:41: 6000000 INFO @ Sat, 15 Jan 2022 19:34:45: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:34:45: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:34:45: #1 total tags in treatment: 2109791 INFO @ Sat, 15 Jan 2022 19:34:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:34:45: #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 19:34:45: #1 tags after filtering in treatment: 175301 INFO @ Sat, 15 Jan 2022 19:34:45: #1 Redundant rate of treatment: 0.92 INFO @ Sat, 15 Jan 2022 19:34:45: #1 finished! INFO @ Sat, 15 Jan 2022 19:34:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:34:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:34:45: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 19:34:45: Too few paired peaks (29) 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 19:34:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.20_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/SRX11781060/SRX11781060.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781060/SRX11781060.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling