Job ID = 14519866 SRX = SRX8829415 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 21923530 spots for SRR12329195/SRR12329195.sra Written 21923530 spots for SRR12329195/SRR12329195.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: 00:12:58 21923530 reads; of these: 21923530 (100.00%) were paired; of these: 3103517 (14.16%) aligned concordantly 0 times 16834555 (76.79%) aligned concordantly exactly 1 time 1985458 (9.06%) aligned concordantly >1 times ---- 3103517 pairs aligned concordantly 0 times; of these: 449187 (14.47%) aligned discordantly 1 time ---- 2654330 pairs aligned 0 times concordantly or discordantly; of these: 5308660 mates make up the pairs; of these: 3496096 (65.86%) aligned 0 times 1517851 (28.59%) aligned exactly 1 time 294713 (5.55%) aligned >1 times 92.03% overall alignment rate Time searching: 00:12:58 Overall time: 00:12:58 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 20 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] 2458208 / 19184929 = 0.1281 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 18:19:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.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 18:19:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:19:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:19:06: 1000000 INFO @ Sat, 15 Jan 2022 18:19:10: 2000000 INFO @ Sat, 15 Jan 2022 18:19:15: 3000000 INFO @ Sat, 15 Jan 2022 18:19:19: 4000000 INFO @ Sat, 15 Jan 2022 18:19:24: 5000000 INFO @ Sat, 15 Jan 2022 18:19:28: 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 18:19:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.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 18:19:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:19:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:19:32: 7000000 INFO @ Sat, 15 Jan 2022 18:19:37: 1000000 INFO @ Sat, 15 Jan 2022 18:19:37: 8000000 INFO @ Sat, 15 Jan 2022 18:19:42: 2000000 INFO @ Sat, 15 Jan 2022 18:19:42: 9000000 INFO @ Sat, 15 Jan 2022 18:19:47: 10000000 INFO @ Sat, 15 Jan 2022 18:19:47: 3000000 INFO @ Sat, 15 Jan 2022 18:19:52: 11000000 INFO @ Sat, 15 Jan 2022 18:19:53: 4000000 INFO @ Sat, 15 Jan 2022 18:19:57: 12000000 INFO @ Sat, 15 Jan 2022 18:19:58: 5000000 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 18:20:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.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 18:20:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:20:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:20:01: 13000000 INFO @ Sat, 15 Jan 2022 18:20:03: 6000000 INFO @ Sat, 15 Jan 2022 18:20:06: 14000000 INFO @ Sat, 15 Jan 2022 18:20:07: 1000000 INFO @ Sat, 15 Jan 2022 18:20:09: 7000000 INFO @ Sat, 15 Jan 2022 18:20:11: 15000000 INFO @ Sat, 15 Jan 2022 18:20:12: 2000000 INFO @ Sat, 15 Jan 2022 18:20:14: 8000000 INFO @ Sat, 15 Jan 2022 18:20:16: 16000000 INFO @ Sat, 15 Jan 2022 18:20:17: 3000000 INFO @ Sat, 15 Jan 2022 18:20:20: 9000000 INFO @ Sat, 15 Jan 2022 18:20:21: 17000000 INFO @ Sat, 15 Jan 2022 18:20:23: 4000000 INFO @ Sat, 15 Jan 2022 18:20:25: 10000000 INFO @ Sat, 15 Jan 2022 18:20:26: 18000000 INFO @ Sat, 15 Jan 2022 18:20:28: 5000000 INFO @ Sat, 15 Jan 2022 18:20:31: 11000000 INFO @ Sat, 15 Jan 2022 18:20:31: 19000000 INFO @ Sat, 15 Jan 2022 18:20:33: 6000000 INFO @ Sat, 15 Jan 2022 18:20:35: 20000000 INFO @ Sat, 15 Jan 2022 18:20:36: 12000000 INFO @ Sat, 15 Jan 2022 18:20:39: 7000000 INFO @ Sat, 15 Jan 2022 18:20:40: 21000000 INFO @ Sat, 15 Jan 2022 18:20:41: 13000000 INFO @ Sat, 15 Jan 2022 18:20:44: 8000000 INFO @ Sat, 15 Jan 2022 18:20:45: 22000000 INFO @ Sat, 15 Jan 2022 18:20:47: 14000000 INFO @ Sat, 15 Jan 2022 18:20:50: 9000000 INFO @ Sat, 15 Jan 2022 18:20:50: 23000000 INFO @ Sat, 15 Jan 2022 18:20:52: 15000000 INFO @ Sat, 15 Jan 2022 18:20:55: 24000000 INFO @ Sat, 15 Jan 2022 18:20:55: 10000000 INFO @ Sat, 15 Jan 2022 18:20:57: 16000000 INFO @ Sat, 15 Jan 2022 18:21:00: 25000000 INFO @ Sat, 15 Jan 2022 18:21:00: 11000000 INFO @ Sat, 15 Jan 2022 18:21:03: 17000000 INFO @ Sat, 15 Jan 2022 18:21:04: 26000000 INFO @ Sat, 15 Jan 2022 18:21:06: 12000000 INFO @ Sat, 15 Jan 2022 18:21:08: 18000000 INFO @ Sat, 15 Jan 2022 18:21:09: 27000000 INFO @ Sat, 15 Jan 2022 18:21:11: 13000000 INFO @ Sat, 15 Jan 2022 18:21:14: 19000000 INFO @ Sat, 15 Jan 2022 18:21:14: 28000000 INFO @ Sat, 15 Jan 2022 18:21:17: 14000000 INFO @ Sat, 15 Jan 2022 18:21:19: 29000000 INFO @ Sat, 15 Jan 2022 18:21:19: 20000000 INFO @ Sat, 15 Jan 2022 18:21:22: 15000000 INFO @ Sat, 15 Jan 2022 18:21:24: 30000000 INFO @ Sat, 15 Jan 2022 18:21:24: 21000000 INFO @ Sat, 15 Jan 2022 18:21:27: 16000000 INFO @ Sat, 15 Jan 2022 18:21:29: 31000000 INFO @ Sat, 15 Jan 2022 18:21:30: 22000000 INFO @ Sat, 15 Jan 2022 18:21:33: 17000000 INFO @ Sat, 15 Jan 2022 18:21:34: 32000000 INFO @ Sat, 15 Jan 2022 18:21:35: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:21:38: 18000000 INFO @ Sat, 15 Jan 2022 18:21:39: 33000000 INFO @ Sat, 15 Jan 2022 18:21:40: 24000000 INFO @ Sat, 15 Jan 2022 18:21:43: 34000000 INFO @ Sat, 15 Jan 2022 18:21:44: 19000000 INFO @ Sat, 15 Jan 2022 18:21:46: 25000000 INFO @ Sat, 15 Jan 2022 18:21:48: 35000000 INFO @ Sat, 15 Jan 2022 18:21:49: 20000000 INFO @ Sat, 15 Jan 2022 18:21:50: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:21:50: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:21:50: #1 total tags in treatment: 16391295 INFO @ Sat, 15 Jan 2022 18:21:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:21:50: #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 18:21:51: #1 tags after filtering in treatment: 8409759 INFO @ Sat, 15 Jan 2022 18:21:51: #1 Redundant rate of treatment: 0.49 INFO @ Sat, 15 Jan 2022 18:21:51: #1 finished! INFO @ Sat, 15 Jan 2022 18:21:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:21:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:21:51: 26000000 INFO @ Sat, 15 Jan 2022 18:21:51: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:21:51: 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 18:21:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.05_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/SRX8829415/SRX8829415.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:21:55: 21000000 INFO @ Sat, 15 Jan 2022 18:21:56: 27000000 INFO @ Sat, 15 Jan 2022 18:22:00: 22000000 INFO @ Sat, 15 Jan 2022 18:22:02: 28000000 INFO @ Sat, 15 Jan 2022 18:22:06: 23000000 INFO @ Sat, 15 Jan 2022 18:22:07: 29000000 INFO @ Sat, 15 Jan 2022 18:22:12: 24000000 INFO @ Sat, 15 Jan 2022 18:22:13: 30000000 INFO @ Sat, 15 Jan 2022 18:22:17: 25000000 INFO @ Sat, 15 Jan 2022 18:22:18: 31000000 INFO @ Sat, 15 Jan 2022 18:22:23: 26000000 INFO @ Sat, 15 Jan 2022 18:22:23: 32000000 INFO @ Sat, 15 Jan 2022 18:22:28: 27000000 INFO @ Sat, 15 Jan 2022 18:22:29: 33000000 INFO @ Sat, 15 Jan 2022 18:22:34: 28000000 INFO @ Sat, 15 Jan 2022 18:22:34: 34000000 INFO @ Sat, 15 Jan 2022 18:22:40: 35000000 INFO @ Sat, 15 Jan 2022 18:22:40: 29000000 INFO @ Sat, 15 Jan 2022 18:22:42: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:22:42: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:22:42: #1 total tags in treatment: 16391295 INFO @ Sat, 15 Jan 2022 18:22:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:22:42: #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 18:22:42: #1 tags after filtering in treatment: 8409759 INFO @ Sat, 15 Jan 2022 18:22:42: #1 Redundant rate of treatment: 0.49 INFO @ Sat, 15 Jan 2022 18:22:42: #1 finished! INFO @ Sat, 15 Jan 2022 18:22:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:22:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:22:43: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:22:43: 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 18:22:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.10_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/SRX8829415/SRX8829415.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:22:45: 30000000 INFO @ Sat, 15 Jan 2022 18:22:51: 31000000 INFO @ Sat, 15 Jan 2022 18:22:56: 32000000 INFO @ Sat, 15 Jan 2022 18:23:02: 33000000 INFO @ Sat, 15 Jan 2022 18:23:07: 34000000 INFO @ Sat, 15 Jan 2022 18:23:12: 35000000 INFO @ Sat, 15 Jan 2022 18:23:15: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:23:15: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:23:15: #1 total tags in treatment: 16391295 INFO @ Sat, 15 Jan 2022 18:23:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:23:15: #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 18:23:15: #1 tags after filtering in treatment: 8409759 INFO @ Sat, 15 Jan 2022 18:23:15: #1 Redundant rate of treatment: 0.49 INFO @ Sat, 15 Jan 2022 18:23:15: #1 finished! INFO @ Sat, 15 Jan 2022 18:23:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:23:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:23:15: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:23:15: 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 18:23:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.20_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/SRX8829415/SRX8829415.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829415/SRX8829415.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling