Job ID = 14520627 SRX = SRX9349773 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10020232 spots for SRR12883917/SRR12883917.sra Written 10020232 spots for SRR12883917/SRR12883917.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: 00:09:20 10020232 reads; of these: 10020232 (100.00%) were paired; of these: 984491 (9.83%) aligned concordantly 0 times 8162885 (81.46%) aligned concordantly exactly 1 time 872856 (8.71%) aligned concordantly >1 times ---- 984491 pairs aligned concordantly 0 times; of these: 593732 (60.31%) aligned discordantly 1 time ---- 390759 pairs aligned 0 times concordantly or discordantly; of these: 781518 mates make up the pairs; of these: 550960 (70.50%) aligned 0 times 92371 (11.82%) aligned exactly 1 time 138187 (17.68%) aligned >1 times 97.25% overall alignment rate Time searching: 00:09:20 Overall time: 00:09:20 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] 968375 / 9552986 = 0.1014 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 19:46:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.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 19:46:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:46:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:46:25: 1000000 INFO @ Sat, 15 Jan 2022 19:46:33: 2000000 INFO @ Sat, 15 Jan 2022 19:46:40: 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 19:46:48: 4000000 INFO @ Sat, 15 Jan 2022 19:46:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.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 19:46:48: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:46:48: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:46:56: 5000000 INFO @ Sat, 15 Jan 2022 19:46:56: 1000000 INFO @ Sat, 15 Jan 2022 19:47:04: 6000000 INFO @ Sat, 15 Jan 2022 19:47:05: 2000000 INFO @ Sat, 15 Jan 2022 19:47:13: 7000000 INFO @ Sat, 15 Jan 2022 19:47:13: 3000000 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 19:47:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.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 19:47:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:47:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:47:21: 8000000 INFO @ Sat, 15 Jan 2022 19:47:22: 4000000 INFO @ Sat, 15 Jan 2022 19:47:27: 1000000 INFO @ Sat, 15 Jan 2022 19:47:30: 9000000 INFO @ Sat, 15 Jan 2022 19:47:31: 5000000 INFO @ Sat, 15 Jan 2022 19:47:37: 2000000 INFO @ Sat, 15 Jan 2022 19:47:38: 10000000 INFO @ Sat, 15 Jan 2022 19:47:40: 6000000 INFO @ Sat, 15 Jan 2022 19:47:45: 3000000 INFO @ Sat, 15 Jan 2022 19:47:47: 11000000 INFO @ Sat, 15 Jan 2022 19:47:48: 7000000 INFO @ Sat, 15 Jan 2022 19:47:54: 4000000 INFO @ Sat, 15 Jan 2022 19:47:55: 12000000 INFO @ Sat, 15 Jan 2022 19:47:57: 8000000 INFO @ Sat, 15 Jan 2022 19:48:03: 5000000 INFO @ Sat, 15 Jan 2022 19:48:04: 13000000 INFO @ Sat, 15 Jan 2022 19:48:06: 9000000 INFO @ Sat, 15 Jan 2022 19:48:12: 6000000 INFO @ Sat, 15 Jan 2022 19:48:13: 14000000 INFO @ Sat, 15 Jan 2022 19:48:14: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:48:21: 7000000 INFO @ Sat, 15 Jan 2022 19:48:21: 15000000 INFO @ Sat, 15 Jan 2022 19:48:23: 11000000 INFO @ Sat, 15 Jan 2022 19:48:30: 16000000 INFO @ Sat, 15 Jan 2022 19:48:30: 8000000 INFO @ Sat, 15 Jan 2022 19:48:32: 12000000 INFO @ Sat, 15 Jan 2022 19:48:38: 17000000 INFO @ Sat, 15 Jan 2022 19:48:39: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:48:41: 13000000 INFO @ Sat, 15 Jan 2022 19:48:43: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:48:43: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:48:43: #1 total tags in treatment: 8098761 INFO @ Sat, 15 Jan 2022 19:48:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:48:43: #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 19:48:43: #1 tags after filtering in treatment: 4898654 INFO @ Sat, 15 Jan 2022 19:48:43: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 19:48:43: #1 finished! INFO @ Sat, 15 Jan 2022 19:48:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:48:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:48:43: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:48:43: 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 19:48:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.05_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/SRX9349773/SRX9349773.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:48:48: 10000000 INFO @ Sat, 15 Jan 2022 19:48:50: 14000000 INFO @ Sat, 15 Jan 2022 19:48:57: 11000000 INFO @ Sat, 15 Jan 2022 19:48:58: 15000000 INFO @ Sat, 15 Jan 2022 19:49:06: 12000000 INFO @ Sat, 15 Jan 2022 19:49:07: 16000000 INFO @ Sat, 15 Jan 2022 19:49:15: 13000000 INFO @ Sat, 15 Jan 2022 19:49:16: 17000000 INFO @ Sat, 15 Jan 2022 19:49:20: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:49:20: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:49:20: #1 total tags in treatment: 8098761 INFO @ Sat, 15 Jan 2022 19:49:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:49:20: #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 19:49:21: #1 tags after filtering in treatment: 4898654 INFO @ Sat, 15 Jan 2022 19:49:21: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 19:49:21: #1 finished! INFO @ Sat, 15 Jan 2022 19:49:21: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:49:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:49:21: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:49:21: 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 19:49:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.10_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/SRX9349773/SRX9349773.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:49:23: 14000000 INFO @ Sat, 15 Jan 2022 19:49:31: 15000000 INFO @ Sat, 15 Jan 2022 19:49:39: 16000000 INFO @ Sat, 15 Jan 2022 19:49:47: 17000000 INFO @ Sat, 15 Jan 2022 19:49:51: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:49:51: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:49:51: #1 total tags in treatment: 8098761 INFO @ Sat, 15 Jan 2022 19:49:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:49:51: #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 19:49:51: #1 tags after filtering in treatment: 4898654 INFO @ Sat, 15 Jan 2022 19:49:51: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 19:49:51: #1 finished! INFO @ Sat, 15 Jan 2022 19:49:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:49:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:49:52: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:49:52: 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 19:49:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.20_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/SRX9349773/SRX9349773.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9349773/SRX9349773.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling