Job ID = 12531687 SRX = SRX4555056 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 18866677 spots for SRR7696757/SRR7696757.sra Written 18866677 spots for SRR7696757/SRR7696757.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: 00:32:54 18866677 reads; of these: 18866677 (100.00%) were paired; of these: 1019813 (5.41%) aligned concordantly 0 times 11347075 (60.14%) aligned concordantly exactly 1 time 6499789 (34.45%) aligned concordantly >1 times ---- 1019813 pairs aligned concordantly 0 times; of these: 74986 (7.35%) aligned discordantly 1 time ---- 944827 pairs aligned 0 times concordantly or discordantly; of these: 1889654 mates make up the pairs; of these: 1527677 (80.84%) aligned 0 times 203328 (10.76%) aligned exactly 1 time 158649 (8.40%) aligned >1 times 95.95% overall alignment rate Time searching: 00:32:54 Overall time: 00:32:54 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] 2749907 / 8314960 = 0.3307 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 10:04:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.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 10:04:17: #1 read tag files... INFO @ Sat, 17 Apr 2021 10:04:17: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 10:04:33: 1000000 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 10:04:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.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 10:04:47: #1 read tag files... INFO @ Sat, 17 Apr 2021 10:04:47: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 10:04:50: 2000000 INFO @ Sat, 17 Apr 2021 10:05:00: 1000000 INFO @ Sat, 17 Apr 2021 10:05:05: 3000000 INFO @ Sat, 17 Apr 2021 10:05:12: 2000000 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 10:05:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.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 10:05:18: #1 read tag files... INFO @ Sat, 17 Apr 2021 10:05:18: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 10:05:20: 4000000 INFO @ Sat, 17 Apr 2021 10:05:24: 3000000 INFO @ Sat, 17 Apr 2021 10:05:33: 1000000 INFO @ Sat, 17 Apr 2021 10:05:34: 5000000 INFO @ Sat, 17 Apr 2021 10:05:38: 4000000 INFO @ Sat, 17 Apr 2021 10:05:46: 2000000 INFO @ Sat, 17 Apr 2021 10:05:47: 6000000 INFO @ Sat, 17 Apr 2021 10:05:51: 5000000 INFO @ Sat, 17 Apr 2021 10:06:00: 7000000 INFO @ Sat, 17 Apr 2021 10:06:01: 3000000 INFO @ Sat, 17 Apr 2021 10:06:06: 6000000 INFO @ Sat, 17 Apr 2021 10:06:16: 8000000 INFO @ Sat, 17 Apr 2021 10:06:18: 4000000 INFO @ Sat, 17 Apr 2021 10:06:19: 7000000 INFO @ Sat, 17 Apr 2021 10:06:31: 5000000 INFO @ Sat, 17 Apr 2021 10:06:31: 9000000 INFO @ Sat, 17 Apr 2021 10:06:34: 8000000 INFO @ Sat, 17 Apr 2021 10:06:45: 6000000 INFO @ Sat, 17 Apr 2021 10:06:47: 10000000 INFO @ Sat, 17 Apr 2021 10:06:48: 9000000 INFO @ Sat, 17 Apr 2021 10:07:00: 7000000 INFO @ Sat, 17 Apr 2021 10:07:00: 11000000 INFO @ Sat, 17 Apr 2021 10:07:01: 10000000 INFO @ Sat, 17 Apr 2021 10:07:11: 8000000 INFO @ Sat, 17 Apr 2021 10:07:12: 12000000 INFO @ Sat, 17 Apr 2021 10:07:13: 11000000 INFO @ Sat, 17 Apr 2021 10:07:24: 13000000 INFO @ Sat, 17 Apr 2021 10:07:25: 9000000 INFO @ Sat, 17 Apr 2021 10:07:25: 12000000 INFO @ Sat, 17 Apr 2021 10:07:38: 14000000 INFO @ Sat, 17 Apr 2021 10:07:40: 13000000 INFO @ Sat, 17 Apr 2021 10:07:40: 10000000 INFO @ Sat, 17 Apr 2021 10:07:51: 15000000 INFO @ Sat, 17 Apr 2021 10:07:54: 14000000 INFO @ Sat, 17 Apr 2021 10:07:57: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 10:08:06: 16000000 INFO @ Sat, 17 Apr 2021 10:08:09: 15000000 INFO @ Sat, 17 Apr 2021 10:08:13: 12000000 INFO @ Sat, 17 Apr 2021 10:08:18: 17000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 10:08:21: 16000000 INFO @ Sat, 17 Apr 2021 10:08:28: 13000000 INFO @ Sat, 17 Apr 2021 10:08:30: 18000000 INFO @ Sat, 17 Apr 2021 10:08:33: 17000000 INFO @ Sat, 17 Apr 2021 10:08:41: 19000000 INFO @ Sat, 17 Apr 2021 10:08:43: 14000000 INFO @ Sat, 17 Apr 2021 10:08:44: 18000000 INFO @ Sat, 17 Apr 2021 10:08:53: 20000000 INFO @ Sat, 17 Apr 2021 10:08:56: 15000000 INFO @ Sat, 17 Apr 2021 10:08:56: 19000000 INFO @ Sat, 17 Apr 2021 10:09:06: 21000000 INFO @ Sat, 17 Apr 2021 10:09:07: 16000000 INFO @ Sat, 17 Apr 2021 10:09:09: 20000000 INFO @ Sat, 17 Apr 2021 10:09:18: 17000000 INFO @ Sat, 17 Apr 2021 10:09:19: 22000000 INFO @ Sat, 17 Apr 2021 10:09:23: 21000000 INFO @ Sat, 17 Apr 2021 10:09:31: 18000000 INFO @ Sat, 17 Apr 2021 10:09:34: 23000000 INFO @ Sat, 17 Apr 2021 10:09:37: 22000000 INFO @ Sat, 17 Apr 2021 10:09:45: 19000000 INFO @ Sat, 17 Apr 2021 10:09:49: 24000000 INFO @ Sat, 17 Apr 2021 10:09:51: 23000000 INFO @ Sat, 17 Apr 2021 10:09:59: 20000000 INFO @ Sat, 17 Apr 2021 10:10:05: 25000000 INFO @ Sat, 17 Apr 2021 10:10:08: 24000000 INFO @ Sat, 17 Apr 2021 10:10:12: 21000000 INFO @ Sat, 17 Apr 2021 10:10:20: 26000000 INFO @ Sat, 17 Apr 2021 10:10:22: 22000000 INFO @ Sat, 17 Apr 2021 10:10:23: 25000000 INFO @ Sat, 17 Apr 2021 10:10:33: 27000000 INFO @ Sat, 17 Apr 2021 10:10:34: 23000000 INFO @ Sat, 17 Apr 2021 10:10:39: 26000000 INFO @ Sat, 17 Apr 2021 10:10:44: 28000000 INFO @ Sat, 17 Apr 2021 10:10:49: 24000000 INFO @ Sat, 17 Apr 2021 10:10:55: 27000000 INFO @ Sat, 17 Apr 2021 10:10:57: 29000000 INFO @ Sat, 17 Apr 2021 10:11:03: 25000000 INFO @ Sat, 17 Apr 2021 10:11:10: 28000000 INFO @ Sat, 17 Apr 2021 10:11:11: 30000000 INFO @ Sat, 17 Apr 2021 10:11:17: 26000000 INFO @ Sat, 17 Apr 2021 10:11:23: #1 tag size is determined as 106 bps INFO @ Sat, 17 Apr 2021 10:11:23: #1 tag size = 106 INFO @ Sat, 17 Apr 2021 10:11:23: #1 total tags in treatment: 15102315 INFO @ Sat, 17 Apr 2021 10:11:23: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 10:11:23: #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 10:11:23: #1 tags after filtering in treatment: 4123169 INFO @ Sat, 17 Apr 2021 10:11:23: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 10:11:23: #1 finished! INFO @ Sat, 17 Apr 2021 10:11:23: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 10:11:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 10:11:24: #2 number of paired peaks: 22 WARNING @ Sat, 17 Apr 2021 10:11:24: Too few paired peaks (22) 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 10:11:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 10:11:26: 29000000 INFO @ Sat, 17 Apr 2021 10:11:28: 27000000 INFO @ Sat, 17 Apr 2021 10:11:39: 28000000 INFO @ Sat, 17 Apr 2021 10:11:43: 30000000 INFO @ Sat, 17 Apr 2021 10:11:52: 29000000 INFO @ Sat, 17 Apr 2021 10:11:56: #1 tag size is determined as 106 bps INFO @ Sat, 17 Apr 2021 10:11:56: #1 tag size = 106 INFO @ Sat, 17 Apr 2021 10:11:56: #1 total tags in treatment: 15102315 INFO @ Sat, 17 Apr 2021 10:11:56: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 10:11:56: #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 10:11:56: #1 tags after filtering in treatment: 4123169 INFO @ Sat, 17 Apr 2021 10:11:56: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 10:11:56: #1 finished! INFO @ Sat, 17 Apr 2021 10:11:56: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 10:11:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 10:11:56: #2 number of paired peaks: 22 WARNING @ Sat, 17 Apr 2021 10:11:56: Too few paired peaks (22) 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 10:11:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 26 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 10:12:07: 30000000 INFO @ Sat, 17 Apr 2021 10:12:18: #1 tag size is determined as 106 bps INFO @ Sat, 17 Apr 2021 10:12:18: #1 tag size = 106 INFO @ Sat, 17 Apr 2021 10:12:18: #1 total tags in treatment: 15102315 INFO @ Sat, 17 Apr 2021 10:12:18: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 10:12:18: #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 10:12:19: #1 tags after filtering in treatment: 4123169 INFO @ Sat, 17 Apr 2021 10:12:19: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 10:12:19: #1 finished! INFO @ Sat, 17 Apr 2021 10:12:19: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 10:12:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 10:12:19: #2 number of paired peaks: 22 WARNING @ Sat, 17 Apr 2021 10:12:19: Too few paired peaks (22) 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 10:12:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 15 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555056/SRX4555056.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling