Job ID = 10223916 SRX = SRX4623306 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 19053685 spots for SRR7767711/SRR7767711.sra Written 19053685 spots for SRR7767711/SRR7767711.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: 00:06:53 19053685 reads; of these: 19053685 (100.00%) were paired; of these: 1136283 (5.96%) aligned concordantly 0 times 15426620 (80.96%) aligned concordantly exactly 1 time 2490782 (13.07%) aligned concordantly >1 times ---- 1136283 pairs aligned concordantly 0 times; of these: 547412 (48.18%) aligned discordantly 1 time ---- 588871 pairs aligned 0 times concordantly or discordantly; of these: 1177742 mates make up the pairs; of these: 699253 (59.37%) aligned 0 times 241274 (20.49%) aligned exactly 1 time 237215 (20.14%) aligned >1 times 98.17% overall alignment rate Time searching: 00:06:53 Overall time: 00:06:53 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] 406521 / 18333627 = 0.0222 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 08:59:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.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 @ Fri, 16 Oct 2020 08:59:09: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:59:09: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:59:15: 1000000 INFO @ Fri, 16 Oct 2020 08:59:20: 2000000 INFO @ Fri, 16 Oct 2020 08:59:25: 3000000 INFO @ Fri, 16 Oct 2020 08:59:30: 4000000 INFO @ Fri, 16 Oct 2020 08:59:35: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 08:59:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.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 @ Fri, 16 Oct 2020 08:59:39: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:59:39: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:59:40: 6000000 INFO @ Fri, 16 Oct 2020 08:59:45: 1000000 INFO @ Fri, 16 Oct 2020 08:59:45: 7000000 INFO @ Fri, 16 Oct 2020 08:59:50: 2000000 INFO @ Fri, 16 Oct 2020 08:59:50: 8000000 INFO @ Fri, 16 Oct 2020 08:59:55: 3000000 INFO @ Fri, 16 Oct 2020 08:59:55: 9000000 INFO @ Fri, 16 Oct 2020 09:00:00: 4000000 INFO @ Fri, 16 Oct 2020 09:00:00: 10000000 INFO @ Fri, 16 Oct 2020 09:00:05: 5000000 INFO @ Fri, 16 Oct 2020 09:00:06: 11000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:00:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.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 @ Fri, 16 Oct 2020 09:00:09: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:00:09: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:00:10: 6000000 INFO @ Fri, 16 Oct 2020 09:00:11: 12000000 INFO @ Fri, 16 Oct 2020 09:00:15: 1000000 INFO @ Fri, 16 Oct 2020 09:00:16: 7000000 INFO @ Fri, 16 Oct 2020 09:00:17: 13000000 INFO @ Fri, 16 Oct 2020 09:00:21: 2000000 INFO @ Fri, 16 Oct 2020 09:00:21: 8000000 INFO @ Fri, 16 Oct 2020 09:00:22: 14000000 INFO @ Fri, 16 Oct 2020 09:00:26: 3000000 INFO @ Fri, 16 Oct 2020 09:00:27: 9000000 INFO @ Fri, 16 Oct 2020 09:00:28: 15000000 INFO @ Fri, 16 Oct 2020 09:00:31: 4000000 INFO @ Fri, 16 Oct 2020 09:00:33: 10000000 INFO @ Fri, 16 Oct 2020 09:00:33: 16000000 INFO @ Fri, 16 Oct 2020 09:00:37: 5000000 INFO @ Fri, 16 Oct 2020 09:00:38: 11000000 INFO @ Fri, 16 Oct 2020 09:00:39: 17000000 INFO @ Fri, 16 Oct 2020 09:00:42: 6000000 INFO @ Fri, 16 Oct 2020 09:00:44: 12000000 INFO @ Fri, 16 Oct 2020 09:00:44: 18000000 INFO @ Fri, 16 Oct 2020 09:00:48: 7000000 INFO @ Fri, 16 Oct 2020 09:00:49: 13000000 INFO @ Fri, 16 Oct 2020 09:00:50: 19000000 INFO @ Fri, 16 Oct 2020 09:00:54: 8000000 INFO @ Fri, 16 Oct 2020 09:00:55: 14000000 INFO @ Fri, 16 Oct 2020 09:00:55: 20000000 INFO @ Fri, 16 Oct 2020 09:00:59: 9000000 INFO @ Fri, 16 Oct 2020 09:01:01: 15000000 INFO @ Fri, 16 Oct 2020 09:01:01: 21000000 INFO @ Fri, 16 Oct 2020 09:01:05: 10000000 INFO @ Fri, 16 Oct 2020 09:01:06: 16000000 INFO @ Fri, 16 Oct 2020 09:01:07: 22000000 INFO @ Fri, 16 Oct 2020 09:01:11: 11000000 INFO @ Fri, 16 Oct 2020 09:01:12: 17000000 INFO @ Fri, 16 Oct 2020 09:01:13: 23000000 INFO @ Fri, 16 Oct 2020 09:01:16: 12000000 INFO @ Fri, 16 Oct 2020 09:01:17: 18000000 INFO @ Fri, 16 Oct 2020 09:01:19: 24000000 INFO @ Fri, 16 Oct 2020 09:01:22: 13000000 INFO @ Fri, 16 Oct 2020 09:01:23: 19000000 INFO @ Fri, 16 Oct 2020 09:01:25: 25000000 INFO @ Fri, 16 Oct 2020 09:01:28: 14000000 INFO @ Fri, 16 Oct 2020 09:01:29: 20000000 INFO @ Fri, 16 Oct 2020 09:01:31: 26000000 INFO @ Fri, 16 Oct 2020 09:01:34: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:01:35: 21000000 INFO @ Fri, 16 Oct 2020 09:01:36: 27000000 INFO @ Fri, 16 Oct 2020 09:01:39: 16000000 INFO @ Fri, 16 Oct 2020 09:01:41: 22000000 INFO @ Fri, 16 Oct 2020 09:01:42: 28000000 INFO @ Fri, 16 Oct 2020 09:01:45: 17000000 INFO @ Fri, 16 Oct 2020 09:01:46: 23000000 INFO @ Fri, 16 Oct 2020 09:01:47: 29000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:01:51: 18000000 INFO @ Fri, 16 Oct 2020 09:01:52: 24000000 INFO @ Fri, 16 Oct 2020 09:01:53: 30000000 INFO @ Fri, 16 Oct 2020 09:01:56: 19000000 INFO @ Fri, 16 Oct 2020 09:01:57: 25000000 INFO @ Fri, 16 Oct 2020 09:01:58: 31000000 INFO @ Fri, 16 Oct 2020 09:02:02: 20000000 INFO @ Fri, 16 Oct 2020 09:02:03: 26000000 INFO @ Fri, 16 Oct 2020 09:02:04: 32000000 INFO @ Fri, 16 Oct 2020 09:02:07: 21000000 INFO @ Fri, 16 Oct 2020 09:02:09: 27000000 INFO @ Fri, 16 Oct 2020 09:02:09: 33000000 INFO @ Fri, 16 Oct 2020 09:02:13: 22000000 INFO @ Fri, 16 Oct 2020 09:02:14: 28000000 INFO @ Fri, 16 Oct 2020 09:02:15: 34000000 INFO @ Fri, 16 Oct 2020 09:02:18: 23000000 INFO @ Fri, 16 Oct 2020 09:02:20: 29000000 INFO @ Fri, 16 Oct 2020 09:02:20: 35000000 INFO @ Fri, 16 Oct 2020 09:02:24: 24000000 INFO @ Fri, 16 Oct 2020 09:02:25: 30000000 INFO @ Fri, 16 Oct 2020 09:02:25: 36000000 INFO @ Fri, 16 Oct 2020 09:02:29: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 09:02:29: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 09:02:29: #1 total tags in treatment: 17512306 INFO @ Fri, 16 Oct 2020 09:02:29: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:02:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:02:29: #1 tags after filtering in treatment: 11170726 INFO @ Fri, 16 Oct 2020 09:02:29: #1 Redundant rate of treatment: 0.36 INFO @ Fri, 16 Oct 2020 09:02:29: #1 finished! INFO @ Fri, 16 Oct 2020 09:02:29: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:02:29: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:02:29: 25000000 INFO @ Fri, 16 Oct 2020 09:02:30: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:02:30: 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 @ Fri, 16 Oct 2020 09:02:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.05_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/SRX4623306/SRX4623306.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:02:30: 31000000 INFO @ Fri, 16 Oct 2020 09:02:35: 26000000 INFO @ Fri, 16 Oct 2020 09:02:36: 32000000 INFO @ Fri, 16 Oct 2020 09:02:40: 27000000 INFO @ Fri, 16 Oct 2020 09:02:41: 33000000 INFO @ Fri, 16 Oct 2020 09:02:46: 28000000 INFO @ Fri, 16 Oct 2020 09:02:47: 34000000 INFO @ Fri, 16 Oct 2020 09:02:51: 29000000 INFO @ Fri, 16 Oct 2020 09:02:52: 35000000 INFO @ Fri, 16 Oct 2020 09:02:56: 30000000 INFO @ Fri, 16 Oct 2020 09:02:57: 36000000 INFO @ Fri, 16 Oct 2020 09:03:01: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 09:03:01: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 09:03:01: #1 total tags in treatment: 17512306 INFO @ Fri, 16 Oct 2020 09:03:01: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:03:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:03:01: #1 tags after filtering in treatment: 11170726 INFO @ Fri, 16 Oct 2020 09:03:01: #1 Redundant rate of treatment: 0.36 INFO @ Fri, 16 Oct 2020 09:03:01: #1 finished! INFO @ Fri, 16 Oct 2020 09:03:01: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:03:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:03:02: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:03:02: 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 @ Fri, 16 Oct 2020 09:03:02: Process for pairing-model is terminated! INFO @ Fri, 16 Oct 2020 09:03:02: 31000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.10_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/SRX4623306/SRX4623306.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:03:07: 32000000 INFO @ Fri, 16 Oct 2020 09:03:12: 33000000 INFO @ Fri, 16 Oct 2020 09:03:17: 34000000 INFO @ Fri, 16 Oct 2020 09:03:22: 35000000 INFO @ Fri, 16 Oct 2020 09:03:26: 36000000 INFO @ Fri, 16 Oct 2020 09:03:29: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 09:03:29: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 09:03:29: #1 total tags in treatment: 17512306 INFO @ Fri, 16 Oct 2020 09:03:29: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:03:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:03:30: #1 tags after filtering in treatment: 11170726 INFO @ Fri, 16 Oct 2020 09:03:30: #1 Redundant rate of treatment: 0.36 INFO @ Fri, 16 Oct 2020 09:03:30: #1 finished! INFO @ Fri, 16 Oct 2020 09:03:30: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:03:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:03:30: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:03:30: 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 @ Fri, 16 Oct 2020 09:03:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.20_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/SRX4623306/SRX4623306.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623306/SRX4623306.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling