Job ID = 14520112 SRX = SRX7496417 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3477077 spots for SRR10823028/SRR10823028.sra Written 3477077 spots for SRR10823028/SRR10823028.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: 00:01:27 3477077 reads; of these: 3477077 (100.00%) were paired; of these: 1689900 (48.60%) aligned concordantly 0 times 1657482 (47.67%) aligned concordantly exactly 1 time 129695 (3.73%) aligned concordantly >1 times ---- 1689900 pairs aligned concordantly 0 times; of these: 11615 (0.69%) aligned discordantly 1 time ---- 1678285 pairs aligned 0 times concordantly or discordantly; of these: 3356570 mates make up the pairs; of these: 1907822 (56.84%) aligned 0 times 1324635 (39.46%) aligned exactly 1 time 124113 (3.70%) aligned >1 times 72.57% overall alignment rate Time searching: 00:01:27 Overall time: 00:01:27 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] 50295 / 1798194 = 0.0280 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 18:24:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.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 18:24:30: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:24:30: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:24:35: 1000000 INFO @ Sat, 15 Jan 2022 18:24:40: 2000000 INFO @ Sat, 15 Jan 2022 18:24:45: 3000000 INFO @ Sat, 15 Jan 2022 18:24:50: 4000000 INFO @ Sat, 15 Jan 2022 18:24:54: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 18:24:54: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 18:24:54: #1 total tags in treatment: 1736982 INFO @ Sat, 15 Jan 2022 18:24:54: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:24:54: #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 18:24:54: #1 tags after filtering in treatment: 1405177 INFO @ Sat, 15 Jan 2022 18:24:54: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 18:24:54: #1 finished! INFO @ Sat, 15 Jan 2022 18:24:54: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:24:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:24:54: #2 number of paired peaks: 59 WARNING @ Sat, 15 Jan 2022 18:24:54: Too few paired peaks (59) 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 18:24:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.05_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/SRX7496417/SRX7496417.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 18:25:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.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 18:25:00: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:25:00: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:25:05: 1000000 INFO @ Sat, 15 Jan 2022 18:25:09: 2000000 INFO @ Sat, 15 Jan 2022 18:25:14: 3000000 INFO @ Sat, 15 Jan 2022 18:25:19: 4000000 INFO @ Sat, 15 Jan 2022 18:25:23: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 18:25:23: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 18:25:23: #1 total tags in treatment: 1736982 INFO @ Sat, 15 Jan 2022 18:25:23: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:25:23: #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 18:25:23: #1 tags after filtering in treatment: 1405177 INFO @ Sat, 15 Jan 2022 18:25:23: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 18:25:23: #1 finished! INFO @ Sat, 15 Jan 2022 18:25:23: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:25:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:25:23: #2 number of paired peaks: 59 WARNING @ Sat, 15 Jan 2022 18:25:23: Too few paired peaks (59) 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 18:25:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.10_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 18:25:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.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 18:25:30: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:25:30: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:25:35: 1000000 INFO @ Sat, 15 Jan 2022 18:25:39: 2000000 INFO @ Sat, 15 Jan 2022 18:25:44: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:25:49: 4000000 INFO @ Sat, 15 Jan 2022 18:25:53: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 18:25:53: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 18:25:53: #1 total tags in treatment: 1736982 INFO @ Sat, 15 Jan 2022 18:25:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:25:53: #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 18:25:53: #1 tags after filtering in treatment: 1405177 INFO @ Sat, 15 Jan 2022 18:25:53: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 18:25:53: #1 finished! INFO @ Sat, 15 Jan 2022 18:25:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:25:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:25:53: #2 number of paired peaks: 59 WARNING @ Sat, 15 Jan 2022 18:25:53: Too few paired peaks (59) 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 18:25:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.20_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/SRX7496417/SRX7496417.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496417/SRX7496417.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。