Job ID = 14520140 SRX = SRX9345657 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17395159 spots for SRR12879681/SRR12879681.sra Written 17395159 spots for SRR12879681/SRR12879681.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: 00:19:42 17395159 reads; of these: 17395159 (100.00%) were paired; of these: 1274916 (7.33%) aligned concordantly 0 times 11461966 (65.89%) aligned concordantly exactly 1 time 4658277 (26.78%) aligned concordantly >1 times ---- 1274916 pairs aligned concordantly 0 times; of these: 166684 (13.07%) aligned discordantly 1 time ---- 1108232 pairs aligned 0 times concordantly or discordantly; of these: 2216464 mates make up the pairs; of these: 1550411 (69.95%) aligned 0 times 381328 (17.20%) aligned exactly 1 time 284725 (12.85%) aligned >1 times 95.54% overall alignment rate Time searching: 00:19:42 Overall time: 00:19:42 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 24 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] 738336 / 7721401 = 0.0956 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 19:01:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.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 19:01:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:01:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:01:45: 1000000 INFO @ Sat, 15 Jan 2022 19:01:51: 2000000 INFO @ Sat, 15 Jan 2022 19:01:58: 3000000 INFO @ Sat, 15 Jan 2022 19:02:05: 4000000 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 19:02:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.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 19:02:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:02:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:02:12: 5000000 INFO @ Sat, 15 Jan 2022 19:02:16: 1000000 INFO @ Sat, 15 Jan 2022 19:02:20: 6000000 INFO @ Sat, 15 Jan 2022 19:02:24: 2000000 INFO @ Sat, 15 Jan 2022 19:02:28: 7000000 INFO @ Sat, 15 Jan 2022 19:02:32: 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 19:02:36: 8000000 INFO @ Sat, 15 Jan 2022 19:02:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.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 19:02:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:02:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:02:40: 4000000 INFO @ Sat, 15 Jan 2022 19:02:44: 9000000 INFO @ Sat, 15 Jan 2022 19:02:46: 1000000 INFO @ Sat, 15 Jan 2022 19:02:49: 5000000 INFO @ Sat, 15 Jan 2022 19:02:53: 10000000 INFO @ Sat, 15 Jan 2022 19:02:54: 2000000 INFO @ Sat, 15 Jan 2022 19:02:57: 6000000 INFO @ Sat, 15 Jan 2022 19:03:01: 11000000 INFO @ Sat, 15 Jan 2022 19:03:02: 3000000 INFO @ Sat, 15 Jan 2022 19:03:05: 7000000 INFO @ Sat, 15 Jan 2022 19:03:09: 12000000 INFO @ Sat, 15 Jan 2022 19:03:10: 4000000 INFO @ Sat, 15 Jan 2022 19:03:13: 8000000 INFO @ Sat, 15 Jan 2022 19:03:17: 13000000 INFO @ Sat, 15 Jan 2022 19:03:18: 5000000 INFO @ Sat, 15 Jan 2022 19:03:21: 9000000 INFO @ Sat, 15 Jan 2022 19:03:25: 14000000 INFO @ Sat, 15 Jan 2022 19:03:26: 6000000 INFO @ Sat, 15 Jan 2022 19:03:29: 10000000 INFO @ Sat, 15 Jan 2022 19:03:33: 15000000 INFO @ Sat, 15 Jan 2022 19:03:34: 7000000 INFO @ Sat, 15 Jan 2022 19:03:37: 11000000 INFO @ Sat, 15 Jan 2022 19:03:41: 16000000 INFO @ Sat, 15 Jan 2022 19:03:42: 8000000 INFO @ Sat, 15 Jan 2022 19:03:45: 12000000 INFO @ Sat, 15 Jan 2022 19:03:49: 17000000 INFO @ Sat, 15 Jan 2022 19:03:51: 9000000 INFO @ Sat, 15 Jan 2022 19:03:54: 13000000 INFO @ Sat, 15 Jan 2022 19:03:57: 18000000 INFO @ Sat, 15 Jan 2022 19:03:59: 10000000 INFO @ Sat, 15 Jan 2022 19:04:02: 14000000 INFO @ Sat, 15 Jan 2022 19:04:05: 19000000 INFO @ Sat, 15 Jan 2022 19:04:07: 11000000 INFO @ Sat, 15 Jan 2022 19:04:10: 15000000 INFO @ Sat, 15 Jan 2022 19:04:13: 20000000 INFO @ Sat, 15 Jan 2022 19:04:15: 12000000 INFO @ Sat, 15 Jan 2022 19:04:19: 16000000 INFO @ Sat, 15 Jan 2022 19:04:21: 21000000 INFO @ Sat, 15 Jan 2022 19:04:24: 13000000 INFO @ Sat, 15 Jan 2022 19:04:27: 17000000 INFO @ Sat, 15 Jan 2022 19:04:29: 22000000 INFO @ Sat, 15 Jan 2022 19:04:32: 14000000 INFO @ Sat, 15 Jan 2022 19:04:35: 18000000 INFO @ Sat, 15 Jan 2022 19:04:37: 23000000 INFO @ Sat, 15 Jan 2022 19:04:40: 15000000 INFO @ Sat, 15 Jan 2022 19:04:43: 19000000 INFO @ Sat, 15 Jan 2022 19:04:45: 24000000 INFO @ Sat, 15 Jan 2022 19:04:48: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:04:51: 20000000 INFO @ Sat, 15 Jan 2022 19:04:54: 25000000 INFO @ Sat, 15 Jan 2022 19:04:56: 17000000 INFO @ Sat, 15 Jan 2022 19:05:00: 21000000 INFO @ Sat, 15 Jan 2022 19:05:02: 26000000 INFO @ Sat, 15 Jan 2022 19:05:05: 18000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:05:08: 22000000 INFO @ Sat, 15 Jan 2022 19:05:10: 27000000 INFO @ Sat, 15 Jan 2022 19:05:13: 19000000 INFO @ Sat, 15 Jan 2022 19:05:16: 23000000 INFO @ Sat, 15 Jan 2022 19:05:18: 28000000 INFO @ Sat, 15 Jan 2022 19:05:21: 20000000 INFO @ Sat, 15 Jan 2022 19:05:25: 24000000 INFO @ Sat, 15 Jan 2022 19:05:27: 29000000 INFO @ Sat, 15 Jan 2022 19:05:29: 21000000 INFO @ Sat, 15 Jan 2022 19:05:33: 25000000 INFO @ Sat, 15 Jan 2022 19:05:35: 30000000 INFO @ Sat, 15 Jan 2022 19:05:37: 22000000 INFO @ Sat, 15 Jan 2022 19:05:41: 26000000 INFO @ Sat, 15 Jan 2022 19:05:43: 31000000 INFO @ Sat, 15 Jan 2022 19:05:45: 23000000 INFO @ Sat, 15 Jan 2022 19:05:49: 27000000 INFO @ Sat, 15 Jan 2022 19:05:50: #1 tag size is determined as 140 bps INFO @ Sat, 15 Jan 2022 19:05:50: #1 tag size = 140 INFO @ Sat, 15 Jan 2022 19:05:50: #1 total tags in treatment: 15384835 INFO @ Sat, 15 Jan 2022 19:05:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:05:50: #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 19:05:50: #1 tags after filtering in treatment: 9107822 INFO @ Sat, 15 Jan 2022 19:05:50: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 19:05:50: #1 finished! INFO @ Sat, 15 Jan 2022 19:05:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:05:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:05:50: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:05:50: 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 19:05:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.05_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/SRX9345657/SRX9345657.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:05:53: 24000000 INFO @ Sat, 15 Jan 2022 19:05:57: 28000000 INFO @ Sat, 15 Jan 2022 19:06:01: 25000000 INFO @ Sat, 15 Jan 2022 19:06:05: 29000000 INFO @ Sat, 15 Jan 2022 19:06:09: 26000000 INFO @ Sat, 15 Jan 2022 19:06:14: 30000000 INFO @ Sat, 15 Jan 2022 19:06:17: 27000000 INFO @ Sat, 15 Jan 2022 19:06:22: 31000000 INFO @ Sat, 15 Jan 2022 19:06:25: 28000000 INFO @ Sat, 15 Jan 2022 19:06:28: #1 tag size is determined as 140 bps INFO @ Sat, 15 Jan 2022 19:06:28: #1 tag size = 140 INFO @ Sat, 15 Jan 2022 19:06:28: #1 total tags in treatment: 15384835 INFO @ Sat, 15 Jan 2022 19:06:28: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:06:28: #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 19:06:28: #1 tags after filtering in treatment: 9107822 INFO @ Sat, 15 Jan 2022 19:06:28: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 19:06:28: #1 finished! INFO @ Sat, 15 Jan 2022 19:06:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:06:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:06:29: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:06:29: 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 19:06:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.10_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/SRX9345657/SRX9345657.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:06:32: 29000000 INFO @ Sat, 15 Jan 2022 19:06:39: 30000000 INFO @ Sat, 15 Jan 2022 19:06:46: 31000000 INFO @ Sat, 15 Jan 2022 19:06:52: #1 tag size is determined as 140 bps INFO @ Sat, 15 Jan 2022 19:06:52: #1 tag size = 140 INFO @ Sat, 15 Jan 2022 19:06:52: #1 total tags in treatment: 15384835 INFO @ Sat, 15 Jan 2022 19:06:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:06:52: #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 19:06:52: #1 tags after filtering in treatment: 9107822 INFO @ Sat, 15 Jan 2022 19:06:52: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 19:06:52: #1 finished! INFO @ Sat, 15 Jan 2022 19:06:52: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:06:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:06:53: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:06:53: 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 19:06:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.20_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/SRX9345657/SRX9345657.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345657/SRX9345657.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling