Job ID = 14522084 SRX = SRX9067129 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14244116 spots for SRR12580282/SRR12580282.sra Written 14244116 spots for SRR12580282/SRR12580282.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: 00:12:09 14244116 reads; of these: 14244116 (100.00%) were paired; of these: 1614201 (11.33%) aligned concordantly 0 times 11035525 (77.47%) aligned concordantly exactly 1 time 1594390 (11.19%) aligned concordantly >1 times ---- 1614201 pairs aligned concordantly 0 times; of these: 473713 (29.35%) aligned discordantly 1 time ---- 1140488 pairs aligned 0 times concordantly or discordantly; of these: 2280976 mates make up the pairs; of these: 1527085 (66.95%) aligned 0 times 547807 (24.02%) aligned exactly 1 time 206084 (9.03%) aligned >1 times 94.64% overall alignment rate Time searching: 00:12:09 Overall time: 00:12:09 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 12 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] 1824860 / 12815778 = 0.1424 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 22:28:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.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 22:28:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:28:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:29:01: 1000000 INFO @ Sat, 15 Jan 2022 22:29:05: 2000000 INFO @ Sat, 15 Jan 2022 22:29:10: 3000000 INFO @ Sat, 15 Jan 2022 22:29:14: 4000000 INFO @ Sat, 15 Jan 2022 22:29:19: 5000000 INFO @ Sat, 15 Jan 2022 22:29:23: 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 22:29:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.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 22:29:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:29:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:29:28: 7000000 INFO @ Sat, 15 Jan 2022 22:29:31: 1000000 INFO @ Sat, 15 Jan 2022 22:29:33: 8000000 INFO @ Sat, 15 Jan 2022 22:29:36: 2000000 INFO @ Sat, 15 Jan 2022 22:29:38: 9000000 INFO @ Sat, 15 Jan 2022 22:29:41: 3000000 INFO @ Sat, 15 Jan 2022 22:29:43: 10000000 INFO @ Sat, 15 Jan 2022 22:29:46: 4000000 INFO @ Sat, 15 Jan 2022 22:29:48: 11000000 INFO @ Sat, 15 Jan 2022 22:29:51: 5000000 INFO @ Sat, 15 Jan 2022 22:29:53: 12000000 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 22:29:56: 6000000 INFO @ Sat, 15 Jan 2022 22:29:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.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 22:29:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:29:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:29:58: 13000000 INFO @ Sat, 15 Jan 2022 22:30:02: 7000000 INFO @ Sat, 15 Jan 2022 22:30:02: 1000000 INFO @ Sat, 15 Jan 2022 22:30:03: 14000000 INFO @ Sat, 15 Jan 2022 22:30:07: 2000000 INFO @ Sat, 15 Jan 2022 22:30:07: 8000000 INFO @ Sat, 15 Jan 2022 22:30:09: 15000000 INFO @ Sat, 15 Jan 2022 22:30:12: 3000000 INFO @ Sat, 15 Jan 2022 22:30:12: 9000000 INFO @ Sat, 15 Jan 2022 22:30:14: 16000000 INFO @ Sat, 15 Jan 2022 22:30:18: 4000000 INFO @ Sat, 15 Jan 2022 22:30:18: 10000000 INFO @ Sat, 15 Jan 2022 22:30:19: 17000000 INFO @ Sat, 15 Jan 2022 22:30:23: 5000000 INFO @ Sat, 15 Jan 2022 22:30:23: 11000000 INFO @ Sat, 15 Jan 2022 22:30:25: 18000000 INFO @ Sat, 15 Jan 2022 22:30:28: 6000000 INFO @ Sat, 15 Jan 2022 22:30:29: 12000000 INFO @ Sat, 15 Jan 2022 22:30:30: 19000000 INFO @ Sat, 15 Jan 2022 22:30:34: 7000000 INFO @ Sat, 15 Jan 2022 22:30:34: 13000000 INFO @ Sat, 15 Jan 2022 22:30:35: 20000000 INFO @ Sat, 15 Jan 2022 22:30:39: 8000000 INFO @ Sat, 15 Jan 2022 22:30:40: 14000000 INFO @ Sat, 15 Jan 2022 22:30:41: 21000000 INFO @ Sat, 15 Jan 2022 22:30:44: 9000000 INFO @ Sat, 15 Jan 2022 22:30:45: 15000000 INFO @ Sat, 15 Jan 2022 22:30:46: 22000000 INFO @ Sat, 15 Jan 2022 22:30:49: 10000000 INFO @ Sat, 15 Jan 2022 22:30:50: 16000000 INFO @ Sat, 15 Jan 2022 22:30:51: 23000000 INFO @ Sat, 15 Jan 2022 22:30:53: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 22:30:53: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 22:30:53: #1 total tags in treatment: 10809985 INFO @ Sat, 15 Jan 2022 22:30:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:30:53: #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 22:30:54: #1 tags after filtering in treatment: 5399900 INFO @ Sat, 15 Jan 2022 22:30:54: #1 Redundant rate of treatment: 0.50 INFO @ Sat, 15 Jan 2022 22:30:54: #1 finished! INFO @ Sat, 15 Jan 2022 22:30:54: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:30:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:30:54: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:30:54: 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 22:30:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.05_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/SRX9067129/SRX9067129.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:30:55: 11000000 INFO @ Sat, 15 Jan 2022 22:30:56: 17000000 INFO @ Sat, 15 Jan 2022 22:31:00: 12000000 INFO @ Sat, 15 Jan 2022 22:31:01: 18000000 INFO @ Sat, 15 Jan 2022 22:31:05: 13000000 INFO @ Sat, 15 Jan 2022 22:31:06: 19000000 INFO @ Sat, 15 Jan 2022 22:31:10: 14000000 INFO @ Sat, 15 Jan 2022 22:31:11: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:31:15: 15000000 INFO @ Sat, 15 Jan 2022 22:31:16: 21000000 INFO @ Sat, 15 Jan 2022 22:31:19: 16000000 INFO @ Sat, 15 Jan 2022 22:31:21: 22000000 INFO @ Sat, 15 Jan 2022 22:31:24: 17000000 INFO @ Sat, 15 Jan 2022 22:31:26: 23000000 INFO @ Sat, 15 Jan 2022 22:31:28: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 22:31:28: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 22:31:28: #1 total tags in treatment: 10809985 INFO @ Sat, 15 Jan 2022 22:31:28: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:31:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:31:28: #1 tags after filtering in treatment: 5399900 INFO @ Sat, 15 Jan 2022 22:31:28: #1 Redundant rate of treatment: 0.50 INFO @ Sat, 15 Jan 2022 22:31:28: #1 finished! INFO @ Sat, 15 Jan 2022 22:31:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:31:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:31:29: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:31:29: 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 22:31:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.10_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/SRX9067129/SRX9067129.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:31:29: 18000000 INFO @ Sat, 15 Jan 2022 22:31:34: 19000000 INFO @ Sat, 15 Jan 2022 22:31:38: 20000000 INFO @ Sat, 15 Jan 2022 22:31:43: 21000000 INFO @ Sat, 15 Jan 2022 22:31:47: 22000000 INFO @ Sat, 15 Jan 2022 22:31:52: 23000000 INFO @ Sat, 15 Jan 2022 22:31:53: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 22:31:53: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 22:31:53: #1 total tags in treatment: 10809985 INFO @ Sat, 15 Jan 2022 22:31:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:31:53: #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 22:31:53: #1 tags after filtering in treatment: 5399900 INFO @ Sat, 15 Jan 2022 22:31:53: #1 Redundant rate of treatment: 0.50 INFO @ Sat, 15 Jan 2022 22:31:53: #1 finished! INFO @ Sat, 15 Jan 2022 22:31:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:31:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:31:54: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:31:54: 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 22:31:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.20_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/SRX9067129/SRX9067129.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067129/SRX9067129.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling