Job ID = 12531587 SRX = SRX3789220 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 40457913 spots for SRR6833140/SRR6833140.sra Written 40457913 spots for SRR6833140/SRR6833140.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:28:04 40457913 reads; of these: 40457913 (100.00%) were paired; of these: 6344976 (15.68%) aligned concordantly 0 times 21226131 (52.46%) aligned concordantly exactly 1 time 12886806 (31.85%) aligned concordantly >1 times ---- 6344976 pairs aligned concordantly 0 times; of these: 2451672 (38.64%) aligned discordantly 1 time ---- 3893304 pairs aligned 0 times concordantly or discordantly; of these: 7786608 mates make up the pairs; of these: 3446036 (44.26%) aligned 0 times 669505 (8.60%) aligned exactly 1 time 3671067 (47.15%) aligned >1 times 95.74% overall alignment rate Time searching: 00:28:05 Overall time: 00:28:05 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 32 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] 19158428 / 36177220 = 0.5296 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 09:06:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.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 09:06:51: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:06:51: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:06:57: 1000000 INFO @ Sat, 17 Apr 2021 09:07:02: 2000000 INFO @ Sat, 17 Apr 2021 09:07:08: 3000000 INFO @ Sat, 17 Apr 2021 09:07:13: 4000000 INFO @ Sat, 17 Apr 2021 09:07:19: 5000000 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 09:07:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.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 09:07:21: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:07:21: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:07:24: 6000000 INFO @ Sat, 17 Apr 2021 09:07:28: 1000000 INFO @ Sat, 17 Apr 2021 09:07:30: 7000000 INFO @ Sat, 17 Apr 2021 09:07:35: 2000000 INFO @ Sat, 17 Apr 2021 09:07:36: 8000000 INFO @ Sat, 17 Apr 2021 09:07:42: 3000000 INFO @ Sat, 17 Apr 2021 09:07:42: 9000000 INFO @ Sat, 17 Apr 2021 09:07:48: 10000000 INFO @ Sat, 17 Apr 2021 09:07:49: 4000000 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 09:07:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.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 09:07:51: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:07:51: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:07:53: 11000000 INFO @ Sat, 17 Apr 2021 09:07:56: 5000000 INFO @ Sat, 17 Apr 2021 09:07:58: 1000000 INFO @ Sat, 17 Apr 2021 09:07:59: 12000000 INFO @ Sat, 17 Apr 2021 09:08:03: 6000000 INFO @ Sat, 17 Apr 2021 09:08:04: 2000000 INFO @ Sat, 17 Apr 2021 09:08:05: 13000000 INFO @ Sat, 17 Apr 2021 09:08:10: 7000000 INFO @ Sat, 17 Apr 2021 09:08:11: 3000000 INFO @ Sat, 17 Apr 2021 09:08:11: 14000000 INFO @ Sat, 17 Apr 2021 09:08:16: 8000000 INFO @ Sat, 17 Apr 2021 09:08:17: 15000000 INFO @ Sat, 17 Apr 2021 09:08:17: 4000000 INFO @ Sat, 17 Apr 2021 09:08:23: 9000000 INFO @ Sat, 17 Apr 2021 09:08:23: 16000000 INFO @ Sat, 17 Apr 2021 09:08:24: 5000000 INFO @ Sat, 17 Apr 2021 09:08:29: 17000000 INFO @ Sat, 17 Apr 2021 09:08:29: 10000000 INFO @ Sat, 17 Apr 2021 09:08:30: 6000000 INFO @ Sat, 17 Apr 2021 09:08:35: 18000000 INFO @ Sat, 17 Apr 2021 09:08:35: 11000000 INFO @ Sat, 17 Apr 2021 09:08:36: 7000000 INFO @ Sat, 17 Apr 2021 09:08:40: 19000000 INFO @ Sat, 17 Apr 2021 09:08:42: 12000000 INFO @ Sat, 17 Apr 2021 09:08:43: 8000000 INFO @ Sat, 17 Apr 2021 09:08:46: 20000000 INFO @ Sat, 17 Apr 2021 09:08:48: 13000000 INFO @ Sat, 17 Apr 2021 09:08:49: 9000000 INFO @ Sat, 17 Apr 2021 09:08:52: 21000000 INFO @ Sat, 17 Apr 2021 09:08:55: 14000000 INFO @ Sat, 17 Apr 2021 09:08:55: 10000000 INFO @ Sat, 17 Apr 2021 09:08:58: 22000000 INFO @ Sat, 17 Apr 2021 09:09:01: 15000000 INFO @ Sat, 17 Apr 2021 09:09:02: 11000000 INFO @ Sat, 17 Apr 2021 09:09:04: 23000000 INFO @ Sat, 17 Apr 2021 09:09:08: 12000000 INFO @ Sat, 17 Apr 2021 09:09:08: 16000000 INFO @ Sat, 17 Apr 2021 09:09:10: 24000000 INFO @ Sat, 17 Apr 2021 09:09:14: 13000000 INFO @ Sat, 17 Apr 2021 09:09:14: 17000000 INFO @ Sat, 17 Apr 2021 09:09:16: 25000000 INFO @ Sat, 17 Apr 2021 09:09:20: 14000000 INFO @ Sat, 17 Apr 2021 09:09:20: 18000000 INFO @ Sat, 17 Apr 2021 09:09:21: 26000000 INFO @ Sat, 17 Apr 2021 09:09:26: 15000000 INFO @ Sat, 17 Apr 2021 09:09:27: 19000000 INFO @ Sat, 17 Apr 2021 09:09:27: 27000000 INFO @ Sat, 17 Apr 2021 09:09:32: 16000000 INFO @ Sat, 17 Apr 2021 09:09:32: 28000000 INFO @ Sat, 17 Apr 2021 09:09:33: 20000000 INFO @ Sat, 17 Apr 2021 09:09:38: 17000000 INFO @ Sat, 17 Apr 2021 09:09:38: 29000000 INFO @ Sat, 17 Apr 2021 09:09:39: 21000000 INFO @ Sat, 17 Apr 2021 09:09:44: 30000000 INFO @ Sat, 17 Apr 2021 09:09:44: 18000000 INFO @ Sat, 17 Apr 2021 09:09:46: 22000000 INFO @ Sat, 17 Apr 2021 09:09:49: 31000000 INFO @ Sat, 17 Apr 2021 09:09:50: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:09:52: 23000000 INFO @ Sat, 17 Apr 2021 09:09:55: 32000000 INFO @ Sat, 17 Apr 2021 09:09:56: 20000000 INFO @ Sat, 17 Apr 2021 09:09:59: 24000000 INFO @ Sat, 17 Apr 2021 09:10:01: 33000000 INFO @ Sat, 17 Apr 2021 09:10:02: 21000000 INFO @ Sat, 17 Apr 2021 09:10:05: 25000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:10:07: 34000000 INFO @ Sat, 17 Apr 2021 09:10:09: 22000000 INFO @ Sat, 17 Apr 2021 09:10:11: 26000000 INFO @ Sat, 17 Apr 2021 09:10:13: 35000000 INFO @ Sat, 17 Apr 2021 09:10:15: 23000000 INFO @ Sat, 17 Apr 2021 09:10:17: 27000000 INFO @ Sat, 17 Apr 2021 09:10:19: 36000000 INFO @ Sat, 17 Apr 2021 09:10:21: 24000000 INFO @ Sat, 17 Apr 2021 09:10:23: 28000000 INFO @ Sat, 17 Apr 2021 09:10:24: 37000000 INFO @ Sat, 17 Apr 2021 09:10:27: 25000000 INFO @ Sat, 17 Apr 2021 09:10:29: 29000000 INFO @ Sat, 17 Apr 2021 09:10:30: 38000000 INFO @ Sat, 17 Apr 2021 09:10:33: 26000000 INFO @ Sat, 17 Apr 2021 09:10:35: 30000000 INFO @ Sat, 17 Apr 2021 09:10:36: 39000000 INFO @ Sat, 17 Apr 2021 09:10:37: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 09:10:37: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 09:10:37: #1 total tags in treatment: 15658318 INFO @ Sat, 17 Apr 2021 09:10:37: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:10:37: #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 09:10:37: #1 tags after filtering in treatment: 5698814 INFO @ Sat, 17 Apr 2021 09:10:37: #1 Redundant rate of treatment: 0.64 INFO @ Sat, 17 Apr 2021 09:10:37: #1 finished! INFO @ Sat, 17 Apr 2021 09:10:37: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:10:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:10:37: #2 number of paired peaks: 0 WARNING @ Sat, 17 Apr 2021 09:10:37: 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, 17 Apr 2021 09:10:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.05_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/SRX3789220/SRX3789220.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:10:39: 27000000 INFO @ Sat, 17 Apr 2021 09:10:41: 31000000 INFO @ Sat, 17 Apr 2021 09:10:45: 28000000 INFO @ Sat, 17 Apr 2021 09:10:47: 32000000 INFO @ Sat, 17 Apr 2021 09:10:51: 29000000 INFO @ Sat, 17 Apr 2021 09:10:52: 33000000 INFO @ Sat, 17 Apr 2021 09:10:57: 30000000 INFO @ Sat, 17 Apr 2021 09:10:58: 34000000 INFO @ Sat, 17 Apr 2021 09:11:03: 31000000 INFO @ Sat, 17 Apr 2021 09:11:03: 35000000 INFO @ Sat, 17 Apr 2021 09:11:09: 36000000 INFO @ Sat, 17 Apr 2021 09:11:09: 32000000 INFO @ Sat, 17 Apr 2021 09:11:15: 37000000 INFO @ Sat, 17 Apr 2021 09:11:15: 33000000 INFO @ Sat, 17 Apr 2021 09:11:20: 38000000 INFO @ Sat, 17 Apr 2021 09:11:21: 34000000 INFO @ Sat, 17 Apr 2021 09:11:26: 39000000 INFO @ Sat, 17 Apr 2021 09:11:27: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 09:11:27: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 09:11:27: #1 total tags in treatment: 15658318 INFO @ Sat, 17 Apr 2021 09:11:27: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:11:27: #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 09:11:27: #1 tags after filtering in treatment: 5698814 INFO @ Sat, 17 Apr 2021 09:11:27: #1 Redundant rate of treatment: 0.64 INFO @ Sat, 17 Apr 2021 09:11:27: #1 finished! INFO @ Sat, 17 Apr 2021 09:11:27: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:11:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:11:27: 35000000 INFO @ Sat, 17 Apr 2021 09:11:27: #2 number of paired peaks: 0 WARNING @ Sat, 17 Apr 2021 09:11:27: 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, 17 Apr 2021 09:11:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:11:33: 36000000 INFO @ Sat, 17 Apr 2021 09:11:39: 37000000 INFO @ Sat, 17 Apr 2021 09:11:44: 38000000 INFO @ Sat, 17 Apr 2021 09:11:50: 39000000 INFO @ Sat, 17 Apr 2021 09:11:51: #1 tag size is determined as 50 bps INFO @ Sat, 17 Apr 2021 09:11:51: #1 tag size = 50 INFO @ Sat, 17 Apr 2021 09:11:51: #1 total tags in treatment: 15658318 INFO @ Sat, 17 Apr 2021 09:11:51: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:11:51: #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 09:11:51: #1 tags after filtering in treatment: 5698814 INFO @ Sat, 17 Apr 2021 09:11:51: #1 Redundant rate of treatment: 0.64 INFO @ Sat, 17 Apr 2021 09:11:51: #1 finished! INFO @ Sat, 17 Apr 2021 09:11:51: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:11:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:11:51: #2 number of paired peaks: 0 WARNING @ Sat, 17 Apr 2021 09:11:51: 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, 17 Apr 2021 09:11:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.20_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/SRX3789220/SRX3789220.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3789220/SRX3789220.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling