Job ID = 14521731 SRX = SRX9399161 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7185917 spots for SRR12935442/SRR12935442.sra Written 7185917 spots for SRR12935442/SRR12935442.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: 00:02:57 7185917 reads; of these: 7185917 (100.00%) were paired; of these: 1106593 (15.40%) aligned concordantly 0 times 5464523 (76.04%) aligned concordantly exactly 1 time 614801 (8.56%) aligned concordantly >1 times ---- 1106593 pairs aligned concordantly 0 times; of these: 164695 (14.88%) aligned discordantly 1 time ---- 941898 pairs aligned 0 times concordantly or discordantly; of these: 1883796 mates make up the pairs; of these: 1571827 (83.44%) aligned 0 times 241242 (12.81%) aligned exactly 1 time 70727 (3.75%) aligned >1 times 89.06% overall alignment rate Time searching: 00:02:57 Overall time: 00:02:57 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] 1197652 / 6218600 = 0.1926 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 21:36:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.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 21:36:20: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:36:20: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:36:24: 1000000 INFO @ Sat, 15 Jan 2022 21:36:28: 2000000 INFO @ Sat, 15 Jan 2022 21:36:32: 3000000 INFO @ Sat, 15 Jan 2022 21:36:36: 4000000 INFO @ Sat, 15 Jan 2022 21:36:40: 5000000 INFO @ Sat, 15 Jan 2022 21:36:43: 6000000 INFO @ Sat, 15 Jan 2022 21:36:47: 7000000 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 21:36:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.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 21:36:50: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:36:50: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:36:51: 8000000 INFO @ Sat, 15 Jan 2022 21:36:54: 1000000 INFO @ Sat, 15 Jan 2022 21:36:55: 9000000 INFO @ Sat, 15 Jan 2022 21:36:59: 2000000 INFO @ Sat, 15 Jan 2022 21:36:59: 10000000 INFO @ Sat, 15 Jan 2022 21:37:00: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:37:00: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:37:00: #1 total tags in treatment: 4895957 INFO @ Sat, 15 Jan 2022 21:37:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:37:00: #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 21:37:01: #1 tags after filtering in treatment: 3373009 INFO @ Sat, 15 Jan 2022 21:37:01: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:37:01: #1 finished! INFO @ Sat, 15 Jan 2022 21:37:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:37:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:37:01: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:37:01: 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 21:37:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.05_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/SRX9399161/SRX9399161.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:37:02: 3000000 INFO @ Sat, 15 Jan 2022 21:37:06: 4000000 INFO @ Sat, 15 Jan 2022 21:37:10: 5000000 INFO @ Sat, 15 Jan 2022 21:37:14: 6000000 INFO @ Sat, 15 Jan 2022 21:37:18: 7000000 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 21:37:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.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 21:37:20: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:37:20: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:37:22: 8000000 INFO @ Sat, 15 Jan 2022 21:37:25: 1000000 INFO @ Sat, 15 Jan 2022 21:37:26: 9000000 INFO @ Sat, 15 Jan 2022 21:37:29: 2000000 INFO @ Sat, 15 Jan 2022 21:37:30: 10000000 INFO @ Sat, 15 Jan 2022 21:37:32: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:37:32: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:37:32: #1 total tags in treatment: 4895957 INFO @ Sat, 15 Jan 2022 21:37:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:37:32: #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 21:37:32: #1 tags after filtering in treatment: 3373009 INFO @ Sat, 15 Jan 2022 21:37:32: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:37:32: #1 finished! INFO @ Sat, 15 Jan 2022 21:37:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:37:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:37:32: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:37:32: 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 21:37:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.10_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/SRX9399161/SRX9399161.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:37:34: 3000000 INFO @ Sat, 15 Jan 2022 21:37:38: 4000000 INFO @ Sat, 15 Jan 2022 21:37:43: 5000000 INFO @ Sat, 15 Jan 2022 21:37:47: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:37:52: 7000000 INFO @ Sat, 15 Jan 2022 21:37:57: 8000000 INFO @ Sat, 15 Jan 2022 21:38:01: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:38:06: 10000000 INFO @ Sat, 15 Jan 2022 21:38:08: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:38:08: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:38:08: #1 total tags in treatment: 4895957 INFO @ Sat, 15 Jan 2022 21:38:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:38:08: #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 21:38:08: #1 tags after filtering in treatment: 3373009 INFO @ Sat, 15 Jan 2022 21:38:08: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:38:08: #1 finished! INFO @ Sat, 15 Jan 2022 21:38:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:38:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:38:08: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:38:08: 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 21:38:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.20_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/SRX9399161/SRX9399161.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399161/SRX9399161.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling