Job ID = 12531639 SRX = SRX4555019 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 21749073 spots for SRR7696711/SRR7696711.sra Written 21749073 spots for SRR7696711/SRR7696711.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: 00:26:37 21749073 reads; of these: 21749073 (100.00%) were paired; of these: 1345131 (6.18%) aligned concordantly 0 times 12701780 (58.40%) aligned concordantly exactly 1 time 7702162 (35.41%) aligned concordantly >1 times ---- 1345131 pairs aligned concordantly 0 times; of these: 80981 (6.02%) aligned discordantly 1 time ---- 1264150 pairs aligned 0 times concordantly or discordantly; of these: 2528300 mates make up the pairs; of these: 2089977 (82.66%) aligned 0 times 254119 (10.05%) aligned exactly 1 time 184204 (7.29%) aligned >1 times 95.20% overall alignment rate Time searching: 00:26:37 Overall time: 00:26:37 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 28 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] 3252796 / 9534119 = 0.3412 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:29:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.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, 17 Apr 2021 09:29:00: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:29:00: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:29:06: 1000000 INFO @ Sat, 17 Apr 2021 09:29:13: 2000000 INFO @ Sat, 17 Apr 2021 09:29:20: 3000000 INFO @ Sat, 17 Apr 2021 09:29:27: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:29:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.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, 17 Apr 2021 09:29:30: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:29:30: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:29:34: 5000000 INFO @ Sat, 17 Apr 2021 09:29:37: 1000000 INFO @ Sat, 17 Apr 2021 09:29:41: 6000000 INFO @ Sat, 17 Apr 2021 09:29:44: 2000000 INFO @ Sat, 17 Apr 2021 09:29:48: 7000000 INFO @ Sat, 17 Apr 2021 09:29:51: 3000000 INFO @ Sat, 17 Apr 2021 09:29:55: 8000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:29:58: 4000000 INFO @ Sat, 17 Apr 2021 09:30:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.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, 17 Apr 2021 09:30:00: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:30:00: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:30:03: 9000000 INFO @ Sat, 17 Apr 2021 09:30:05: 5000000 INFO @ Sat, 17 Apr 2021 09:30:07: 1000000 INFO @ Sat, 17 Apr 2021 09:30:10: 10000000 INFO @ Sat, 17 Apr 2021 09:30:12: 6000000 INFO @ Sat, 17 Apr 2021 09:30:15: 2000000 INFO @ Sat, 17 Apr 2021 09:30:17: 11000000 INFO @ Sat, 17 Apr 2021 09:30:19: 7000000 INFO @ Sat, 17 Apr 2021 09:30:22: 3000000 INFO @ Sat, 17 Apr 2021 09:30:24: 12000000 INFO @ Sat, 17 Apr 2021 09:30:26: 8000000 INFO @ Sat, 17 Apr 2021 09:30:29: 4000000 INFO @ Sat, 17 Apr 2021 09:30:31: 13000000 INFO @ Sat, 17 Apr 2021 09:30:33: 9000000 INFO @ Sat, 17 Apr 2021 09:30:36: 5000000 INFO @ Sat, 17 Apr 2021 09:30:39: 14000000 INFO @ Sat, 17 Apr 2021 09:30:40: 10000000 INFO @ Sat, 17 Apr 2021 09:30:44: 6000000 INFO @ Sat, 17 Apr 2021 09:30:46: 15000000 INFO @ Sat, 17 Apr 2021 09:30:47: 11000000 INFO @ Sat, 17 Apr 2021 09:30:50: 7000000 INFO @ Sat, 17 Apr 2021 09:30:53: 16000000 INFO @ Sat, 17 Apr 2021 09:30:55: 12000000 INFO @ Sat, 17 Apr 2021 09:30:57: 8000000 INFO @ Sat, 17 Apr 2021 09:30:59: 17000000 INFO @ Sat, 17 Apr 2021 09:31:02: 13000000 INFO @ Sat, 17 Apr 2021 09:31:05: 9000000 INFO @ Sat, 17 Apr 2021 09:31:06: 18000000 INFO @ Sat, 17 Apr 2021 09:31:09: 14000000 INFO @ Sat, 17 Apr 2021 09:31:12: 10000000 INFO @ Sat, 17 Apr 2021 09:31:12: 19000000 INFO @ Sat, 17 Apr 2021 09:31:16: 15000000 INFO @ Sat, 17 Apr 2021 09:31:18: 20000000 INFO @ Sat, 17 Apr 2021 09:31:19: 11000000 INFO @ Sat, 17 Apr 2021 09:31:23: 16000000 INFO @ Sat, 17 Apr 2021 09:31:25: 21000000 INFO @ Sat, 17 Apr 2021 09:31:26: 12000000 INFO @ Sat, 17 Apr 2021 09:31:29: 17000000 INFO @ Sat, 17 Apr 2021 09:31:31: 22000000 INFO @ Sat, 17 Apr 2021 09:31:33: 13000000 INFO @ Sat, 17 Apr 2021 09:31:35: 18000000 INFO @ Sat, 17 Apr 2021 09:31:37: 23000000 INFO @ Sat, 17 Apr 2021 09:31:40: 14000000 INFO @ Sat, 17 Apr 2021 09:31:42: 19000000 INFO @ Sat, 17 Apr 2021 09:31:44: 24000000 INFO @ Sat, 17 Apr 2021 09:31:47: 15000000 INFO @ Sat, 17 Apr 2021 09:31:48: 20000000 INFO @ Sat, 17 Apr 2021 09:31:50: 25000000 INFO @ Sat, 17 Apr 2021 09:31:54: 21000000 INFO @ Sat, 17 Apr 2021 09:31:54: 16000000 INFO @ Sat, 17 Apr 2021 09:31:56: 26000000 INFO @ Sat, 17 Apr 2021 09:32:00: 22000000 INFO @ Sat, 17 Apr 2021 09:32:00: 17000000 INFO @ Sat, 17 Apr 2021 09:32:03: 27000000 INFO @ Sat, 17 Apr 2021 09:32:06: 23000000 INFO @ Sat, 17 Apr 2021 09:32:06: 18000000 INFO @ Sat, 17 Apr 2021 09:32:10: 28000000 INFO @ Sat, 17 Apr 2021 09:32:13: 24000000 INFO @ Sat, 17 Apr 2021 09:32:13: 19000000 INFO @ Sat, 17 Apr 2021 09:32:17: 29000000 INFO @ Sat, 17 Apr 2021 09:32:19: 20000000 INFO @ Sat, 17 Apr 2021 09:32:19: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:32:24: 30000000 INFO @ Sat, 17 Apr 2021 09:32:25: 21000000 INFO @ Sat, 17 Apr 2021 09:32:25: 26000000 INFO @ Sat, 17 Apr 2021 09:32:31: 31000000 INFO @ Sat, 17 Apr 2021 09:32:31: 22000000 INFO @ Sat, 17 Apr 2021 09:32:32: 27000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:32:38: 23000000 INFO @ Sat, 17 Apr 2021 09:32:38: 32000000 INFO @ Sat, 17 Apr 2021 09:32:39: 28000000 INFO @ Sat, 17 Apr 2021 09:32:44: 24000000 INFO @ Sat, 17 Apr 2021 09:32:45: 33000000 INFO @ Sat, 17 Apr 2021 09:32:46: 29000000 INFO @ Sat, 17 Apr 2021 09:32:50: 25000000 INFO @ Sat, 17 Apr 2021 09:32:52: 34000000 INFO @ Sat, 17 Apr 2021 09:32:53: 30000000 INFO @ Sat, 17 Apr 2021 09:32:57: 26000000 INFO @ Sat, 17 Apr 2021 09:32:58: #1 tag size is determined as 69 bps INFO @ Sat, 17 Apr 2021 09:32:58: #1 tag size = 69 INFO @ Sat, 17 Apr 2021 09:32:58: #1 total tags in treatment: 17156966 INFO @ Sat, 17 Apr 2021 09:32:58: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:32:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:32:59: #1 tags after filtering in treatment: 4404764 INFO @ Sat, 17 Apr 2021 09:32:59: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:32:59: #1 finished! INFO @ Sat, 17 Apr 2021 09:32:59: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:32:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:32:59: #2 number of paired peaks: 15 WARNING @ Sat, 17 Apr 2021 09:32:59: Too few paired peaks (15) 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, 17 Apr 2021 09:32:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.05_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/SRX4555019/SRX4555019.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:33:00: 31000000 INFO @ Sat, 17 Apr 2021 09:33:04: 27000000 INFO @ Sat, 17 Apr 2021 09:33:07: 32000000 INFO @ Sat, 17 Apr 2021 09:33:11: 28000000 INFO @ Sat, 17 Apr 2021 09:33:14: 33000000 INFO @ Sat, 17 Apr 2021 09:33:18: 29000000 INFO @ Sat, 17 Apr 2021 09:33:21: 34000000 INFO @ Sat, 17 Apr 2021 09:33:25: 30000000 INFO @ Sat, 17 Apr 2021 09:33:27: #1 tag size is determined as 69 bps INFO @ Sat, 17 Apr 2021 09:33:27: #1 tag size = 69 INFO @ Sat, 17 Apr 2021 09:33:27: #1 total tags in treatment: 17156966 INFO @ Sat, 17 Apr 2021 09:33:27: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:33:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:33:28: #1 tags after filtering in treatment: 4404764 INFO @ Sat, 17 Apr 2021 09:33:28: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:33:28: #1 finished! INFO @ Sat, 17 Apr 2021 09:33:28: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:33:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:33:28: #2 number of paired peaks: 15 WARNING @ Sat, 17 Apr 2021 09:33:28: Too few paired peaks (15) 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, 17 Apr 2021 09:33:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.10_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/SRX4555019/SRX4555019.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:33:32: 31000000 INFO @ Sat, 17 Apr 2021 09:33:38: 32000000 INFO @ Sat, 17 Apr 2021 09:33:45: 33000000 INFO @ Sat, 17 Apr 2021 09:33:51: 34000000 INFO @ Sat, 17 Apr 2021 09:33:58: #1 tag size is determined as 69 bps INFO @ Sat, 17 Apr 2021 09:33:58: #1 tag size = 69 INFO @ Sat, 17 Apr 2021 09:33:58: #1 total tags in treatment: 17156966 INFO @ Sat, 17 Apr 2021 09:33:58: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:33:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:33:58: #1 tags after filtering in treatment: 4404764 INFO @ Sat, 17 Apr 2021 09:33:58: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:33:58: #1 finished! INFO @ Sat, 17 Apr 2021 09:33:58: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:33:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:33:58: #2 number of paired peaks: 15 WARNING @ Sat, 17 Apr 2021 09:33:58: Too few paired peaks (15) 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, 17 Apr 2021 09:33:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.20_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/SRX4555019/SRX4555019.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555019/SRX4555019.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling