Job ID = 14521803 SRX = SRX9399183 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8723405 spots for SRR12935464/SRR12935464.sra Written 8723405 spots for SRR12935464/SRR12935464.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: 00:04:28 8723405 reads; of these: 8723405 (100.00%) were paired; of these: 1723049 (19.75%) aligned concordantly 0 times 5747517 (65.89%) aligned concordantly exactly 1 time 1252839 (14.36%) aligned concordantly >1 times ---- 1723049 pairs aligned concordantly 0 times; of these: 93901 (5.45%) aligned discordantly 1 time ---- 1629148 pairs aligned 0 times concordantly or discordantly; of these: 3258296 mates make up the pairs; of these: 3014939 (92.53%) aligned 0 times 171994 (5.28%) aligned exactly 1 time 71363 (2.19%) aligned >1 times 82.72% overall alignment rate Time searching: 00:04:28 Overall time: 00:04:28 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] 1972244 / 7076700 = 0.2787 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 21:44:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.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 21:44:50: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:44:50: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:44:54: 1000000 INFO @ Sat, 15 Jan 2022 21:44:58: 2000000 INFO @ Sat, 15 Jan 2022 21:45:02: 3000000 INFO @ Sat, 15 Jan 2022 21:45:06: 4000000 INFO @ Sat, 15 Jan 2022 21:45:10: 5000000 INFO @ Sat, 15 Jan 2022 21:45:15: 6000000 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 21:45:19: 7000000 INFO @ Sat, 15 Jan 2022 21:45:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.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 21:45:20: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:20: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:23: 8000000 INFO @ Sat, 15 Jan 2022 21:45:25: 1000000 INFO @ Sat, 15 Jan 2022 21:45:27: 9000000 INFO @ Sat, 15 Jan 2022 21:45:29: 2000000 INFO @ Sat, 15 Jan 2022 21:45:31: 10000000 INFO @ Sat, 15 Jan 2022 21:45:33: 3000000 INFO @ Sat, 15 Jan 2022 21:45:33: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:45:33: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:45:33: #1 total tags in treatment: 5042728 INFO @ Sat, 15 Jan 2022 21:45:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:45:33: #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 21:45:33: #1 tags after filtering in treatment: 3278396 INFO @ Sat, 15 Jan 2022 21:45:33: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:45:33: #1 finished! INFO @ Sat, 15 Jan 2022 21:45:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:45:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:45:33: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 21:45:33: Too few paired peaks (9) 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 21:45:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.05_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/SRX9399183/SRX9399183.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:45:37: 4000000 INFO @ Sat, 15 Jan 2022 21:45:41: 5000000 INFO @ Sat, 15 Jan 2022 21:45:46: 6000000 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 21:45:50: 7000000 INFO @ Sat, 15 Jan 2022 21:45:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.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 21:45:50: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:50: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:54: 8000000 INFO @ Sat, 15 Jan 2022 21:45:54: 1000000 INFO @ Sat, 15 Jan 2022 21:45:58: 9000000 INFO @ Sat, 15 Jan 2022 21:45:58: 2000000 INFO @ Sat, 15 Jan 2022 21:46:02: 10000000 INFO @ Sat, 15 Jan 2022 21:46:02: 3000000 INFO @ Sat, 15 Jan 2022 21:46:04: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:46:04: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:46:04: #1 total tags in treatment: 5042728 INFO @ Sat, 15 Jan 2022 21:46:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:04: #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 21:46:04: #1 tags after filtering in treatment: 3278396 INFO @ Sat, 15 Jan 2022 21:46:04: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:46:04: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:04: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:05: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 21:46:05: Too few paired peaks (9) 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 21:46:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.10_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/SRX9399183/SRX9399183.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:46:06: 4000000 INFO @ Sat, 15 Jan 2022 21:46:10: 5000000 INFO @ Sat, 15 Jan 2022 21:46:14: 6000000 INFO @ Sat, 15 Jan 2022 21:46:18: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:46:22: 8000000 INFO @ Sat, 15 Jan 2022 21:46:26: 9000000 INFO @ Sat, 15 Jan 2022 21:46:30: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:46:32: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:46:32: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:46:32: #1 total tags in treatment: 5042728 INFO @ Sat, 15 Jan 2022 21:46:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:32: #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 21:46:33: #1 tags after filtering in treatment: 3278396 INFO @ Sat, 15 Jan 2022 21:46:33: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:46:33: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:33: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 21:46:33: Too few paired peaks (9) 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 21:46:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.20_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/SRX9399183/SRX9399183.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399183/SRX9399183.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling