Job ID = 14521647 SRX = SRX9399139 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8080383 spots for SRR12935420/SRR12935420.sra Written 8080383 spots for SRR12935420/SRR12935420.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: 00:03:23 8080383 reads; of these: 8080383 (100.00%) were paired; of these: 1392600 (17.23%) aligned concordantly 0 times 6070152 (75.12%) aligned concordantly exactly 1 time 617631 (7.64%) aligned concordantly >1 times ---- 1392600 pairs aligned concordantly 0 times; of these: 136843 (9.83%) aligned discordantly 1 time ---- 1255757 pairs aligned 0 times concordantly or discordantly; of these: 2511514 mates make up the pairs; of these: 2161213 (86.05%) aligned 0 times 276775 (11.02%) aligned exactly 1 time 73526 (2.93%) aligned >1 times 86.63% overall alignment rate Time searching: 00:03:23 Overall time: 00:03:23 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_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] 1031029 / 6812792 = 0.1513 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 21:25:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.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 21:25:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:25:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:25:35: 1000000 INFO @ Sat, 15 Jan 2022 21:25:40: 2000000 INFO @ Sat, 15 Jan 2022 21:25:45: 3000000 INFO @ Sat, 15 Jan 2022 21:25:49: 4000000 INFO @ Sat, 15 Jan 2022 21:25:54: 5000000 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 21:25:59: 6000000 INFO @ Sat, 15 Jan 2022 21:25:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.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 21:25:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:25:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:26:05: 7000000 INFO @ Sat, 15 Jan 2022 21:26:05: 1000000 INFO @ Sat, 15 Jan 2022 21:26:11: 8000000 INFO @ Sat, 15 Jan 2022 21:26:12: 2000000 INFO @ Sat, 15 Jan 2022 21:26:17: 9000000 INFO @ Sat, 15 Jan 2022 21:26:18: 3000000 INFO @ Sat, 15 Jan 2022 21:26:23: 10000000 INFO @ Sat, 15 Jan 2022 21:26:24: 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 21:26:29: 11000000 INFO @ Sat, 15 Jan 2022 21:26:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.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 21:26:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:26:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:26:30: 5000000 INFO @ Sat, 15 Jan 2022 21:26:34: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:26:34: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:26:34: #1 total tags in treatment: 5666953 INFO @ Sat, 15 Jan 2022 21:26:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:26:34: #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 21:26:34: #1 tags after filtering in treatment: 3741191 INFO @ Sat, 15 Jan 2022 21:26:34: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:26:34: #1 finished! INFO @ Sat, 15 Jan 2022 21:26:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:26:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:26:35: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:26:35: 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 21:26:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.05_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/SRX9399139/SRX9399139.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:26:35: 1000000 INFO @ Sat, 15 Jan 2022 21:26:36: 6000000 INFO @ Sat, 15 Jan 2022 21:26:41: 2000000 INFO @ Sat, 15 Jan 2022 21:26:42: 7000000 INFO @ Sat, 15 Jan 2022 21:26:47: 3000000 INFO @ Sat, 15 Jan 2022 21:26:47: 8000000 INFO @ Sat, 15 Jan 2022 21:26:53: 4000000 INFO @ Sat, 15 Jan 2022 21:26:53: 9000000 INFO @ Sat, 15 Jan 2022 21:26:59: 5000000 INFO @ Sat, 15 Jan 2022 21:26:59: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:27:05: 6000000 INFO @ Sat, 15 Jan 2022 21:27:05: 11000000 INFO @ Sat, 15 Jan 2022 21:27:10: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:27:10: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:27:10: #1 total tags in treatment: 5666953 INFO @ Sat, 15 Jan 2022 21:27:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:27:10: #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 21:27:10: #1 tags after filtering in treatment: 3741191 INFO @ Sat, 15 Jan 2022 21:27:10: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:27:10: #1 finished! INFO @ Sat, 15 Jan 2022 21:27:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:27:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:27:11: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:27:11: 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 21:27:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.10_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 21:27:11: 7000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:27:16: 8000000 INFO @ Sat, 15 Jan 2022 21:27:22: 9000000 INFO @ Sat, 15 Jan 2022 21:27:27: 10000000 INFO @ Sat, 15 Jan 2022 21:27:33: 11000000 INFO @ Sat, 15 Jan 2022 21:27:38: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:27:38: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:27:38: #1 total tags in treatment: 5666953 INFO @ Sat, 15 Jan 2022 21:27:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:27:38: #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 21:27:38: #1 tags after filtering in treatment: 3741191 INFO @ Sat, 15 Jan 2022 21:27:38: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:27:38: #1 finished! INFO @ Sat, 15 Jan 2022 21:27:38: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:27:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:27:38: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:27:38: 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 21:27:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.20_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/SRX9399139/SRX9399139.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399139/SRX9399139.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling