Job ID = 12531629 SRX = SRX4555010 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12499605 spots for SRR7696698/SRR7696698.sra Written 12499605 spots for SRR7696698/SRR7696698.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: 00:17:44 12499605 reads; of these: 12499605 (100.00%) were paired; of these: 725684 (5.81%) aligned concordantly 0 times 6951398 (55.61%) aligned concordantly exactly 1 time 4822523 (38.58%) aligned concordantly >1 times ---- 725684 pairs aligned concordantly 0 times; of these: 46854 (6.46%) aligned discordantly 1 time ---- 678830 pairs aligned 0 times concordantly or discordantly; of these: 1357660 mates make up the pairs; of these: 1088415 (80.17%) aligned 0 times 154597 (11.39%) aligned exactly 1 time 114648 (8.44%) aligned >1 times 95.65% overall alignment rate Time searching: 00:17:44 Overall time: 00:17:44 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 16 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] 1601979 / 4981011 = 0.3216 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 09:10:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.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 09:10:09: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:10:09: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:10:15: 1000000 INFO @ Sat, 17 Apr 2021 09:10:22: 2000000 INFO @ Sat, 17 Apr 2021 09:10:29: 3000000 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 09:10:37: 4000000 INFO @ Sat, 17 Apr 2021 09:10:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.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 09:10:39: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:10:39: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:10:44: 5000000 INFO @ Sat, 17 Apr 2021 09:10:47: 1000000 INFO @ Sat, 17 Apr 2021 09:10:51: 6000000 INFO @ Sat, 17 Apr 2021 09:10:54: 2000000 INFO @ Sat, 17 Apr 2021 09:10:58: 7000000 INFO @ Sat, 17 Apr 2021 09:11:02: 3000000 INFO @ Sat, 17 Apr 2021 09:11:05: 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 09:11:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.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 09:11:09: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:11:09: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:11:10: 4000000 INFO @ Sat, 17 Apr 2021 09:11:13: 9000000 INFO @ Sat, 17 Apr 2021 09:11:16: 1000000 INFO @ Sat, 17 Apr 2021 09:11:17: 5000000 INFO @ Sat, 17 Apr 2021 09:11:20: 10000000 INFO @ Sat, 17 Apr 2021 09:11:24: 6000000 INFO @ Sat, 17 Apr 2021 09:11:24: 2000000 INFO @ Sat, 17 Apr 2021 09:11:27: 11000000 INFO @ Sat, 17 Apr 2021 09:11:31: 7000000 INFO @ Sat, 17 Apr 2021 09:11:32: 3000000 INFO @ Sat, 17 Apr 2021 09:11:34: 12000000 INFO @ Sat, 17 Apr 2021 09:11:38: 8000000 INFO @ Sat, 17 Apr 2021 09:11:40: 4000000 INFO @ Sat, 17 Apr 2021 09:11:41: 13000000 INFO @ Sat, 17 Apr 2021 09:11:45: 9000000 INFO @ Sat, 17 Apr 2021 09:11:48: 14000000 INFO @ Sat, 17 Apr 2021 09:11:48: 5000000 INFO @ Sat, 17 Apr 2021 09:11:51: 10000000 INFO @ Sat, 17 Apr 2021 09:11:55: 15000000 INFO @ Sat, 17 Apr 2021 09:11:56: 6000000 INFO @ Sat, 17 Apr 2021 09:11:58: 11000000 INFO @ Sat, 17 Apr 2021 09:12:02: 16000000 INFO @ Sat, 17 Apr 2021 09:12:04: 7000000 INFO @ Sat, 17 Apr 2021 09:12:04: 12000000 INFO @ Sat, 17 Apr 2021 09:12:09: 17000000 INFO @ Sat, 17 Apr 2021 09:12:11: 13000000 INFO @ Sat, 17 Apr 2021 09:12:12: 8000000 INFO @ Sat, 17 Apr 2021 09:12:17: 18000000 INFO @ Sat, 17 Apr 2021 09:12:17: 14000000 INFO @ Sat, 17 Apr 2021 09:12:19: 9000000 INFO @ Sat, 17 Apr 2021 09:12:24: 15000000 INFO @ Sat, 17 Apr 2021 09:12:25: 19000000 INFO @ Sat, 17 Apr 2021 09:12:27: 10000000 INFO @ Sat, 17 Apr 2021 09:12:31: 16000000 INFO @ Sat, 17 Apr 2021 09:12:32: 20000000 INFO @ Sat, 17 Apr 2021 09:12:34: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:12:38: 17000000 INFO @ Sat, 17 Apr 2021 09:12:38: #1 tag size is determined as 79 bps INFO @ Sat, 17 Apr 2021 09:12:38: #1 tag size = 79 INFO @ Sat, 17 Apr 2021 09:12:38: #1 total tags in treatment: 10174473 INFO @ Sat, 17 Apr 2021 09:12:38: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:12:38: #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 09:12:38: #1 tags after filtering in treatment: 2749459 INFO @ Sat, 17 Apr 2021 09:12:38: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:12:38: #1 finished! INFO @ Sat, 17 Apr 2021 09:12:38: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:12:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:12:38: #2 number of paired peaks: 45 WARNING @ Sat, 17 Apr 2021 09:12:38: Too few paired peaks (45) 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 09:12:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.05_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/SRX4555010/SRX4555010.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:12:41: 12000000 INFO @ Sat, 17 Apr 2021 09:12:45: 18000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:12:48: 13000000 INFO @ Sat, 17 Apr 2021 09:12:52: 19000000 INFO @ Sat, 17 Apr 2021 09:12:55: 14000000 INFO @ Sat, 17 Apr 2021 09:12:59: 20000000 INFO @ Sat, 17 Apr 2021 09:13:02: 15000000 INFO @ Sat, 17 Apr 2021 09:13:04: #1 tag size is determined as 79 bps INFO @ Sat, 17 Apr 2021 09:13:04: #1 tag size = 79 INFO @ Sat, 17 Apr 2021 09:13:04: #1 total tags in treatment: 10174473 INFO @ Sat, 17 Apr 2021 09:13:04: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:13:04: #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 09:13:04: #1 tags after filtering in treatment: 2749459 INFO @ Sat, 17 Apr 2021 09:13:04: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:13:04: #1 finished! INFO @ Sat, 17 Apr 2021 09:13:04: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:13:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:13:05: #2 number of paired peaks: 45 WARNING @ Sat, 17 Apr 2021 09:13:05: Too few paired peaks (45) 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 09:13:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.10_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/SRX4555010/SRX4555010.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:13:09: 16000000 INFO @ Sat, 17 Apr 2021 09:13:16: 17000000 INFO @ Sat, 17 Apr 2021 09:13:23: 18000000 INFO @ Sat, 17 Apr 2021 09:13:29: 19000000 INFO @ Sat, 17 Apr 2021 09:13:36: 20000000 INFO @ Sat, 17 Apr 2021 09:13:41: #1 tag size is determined as 79 bps INFO @ Sat, 17 Apr 2021 09:13:41: #1 tag size = 79 INFO @ Sat, 17 Apr 2021 09:13:41: #1 total tags in treatment: 10174473 INFO @ Sat, 17 Apr 2021 09:13:41: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:13:41: #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 09:13:42: #1 tags after filtering in treatment: 2749459 INFO @ Sat, 17 Apr 2021 09:13:42: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:13:42: #1 finished! INFO @ Sat, 17 Apr 2021 09:13:42: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:13:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:13:42: #2 number of paired peaks: 45 WARNING @ Sat, 17 Apr 2021 09:13:42: Too few paired peaks (45) 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 09:13:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.20_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/SRX4555010/SRX4555010.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555010/SRX4555010.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling