Job ID = 7107744 SRX = SRX7217634 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17522356 spots for SRR10533711/SRR10533711.sra Written 17522356 spots for SRR10533711/SRR10533711.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: 00:23:57 17522356 reads; of these: 17522356 (100.00%) were paired; of these: 6949034 (39.66%) aligned concordantly 0 times 8885640 (50.71%) aligned concordantly exactly 1 time 1687682 (9.63%) aligned concordantly >1 times ---- 6949034 pairs aligned concordantly 0 times; of these: 3144100 (45.25%) aligned discordantly 1 time ---- 3804934 pairs aligned 0 times concordantly or discordantly; of these: 7609868 mates make up the pairs; of these: 6056934 (79.59%) aligned 0 times 313418 (4.12%) aligned exactly 1 time 1239516 (16.29%) aligned >1 times 82.72% overall alignment rate Time searching: 00:23:57 Overall time: 00:23:57 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] 2708213 / 13600421 = 0.1991 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:47:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.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 @ Wed, 22 Jul 2020 13:47:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:47:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:47:58: 1000000 INFO @ Wed, 22 Jul 2020 13:48:06: 2000000 INFO @ Wed, 22 Jul 2020 13:48:14: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:48:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.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 @ Wed, 22 Jul 2020 13:48:19: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:48:19: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:48:22: 4000000 INFO @ Wed, 22 Jul 2020 13:48:29: 1000000 INFO @ Wed, 22 Jul 2020 13:48:32: 5000000 INFO @ Wed, 22 Jul 2020 13:48:39: 2000000 INFO @ Wed, 22 Jul 2020 13:48:41: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:48:48: 3000000 INFO @ Wed, 22 Jul 2020 13:48:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.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 @ Wed, 22 Jul 2020 13:48:49: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:48:49: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:48:51: 7000000 INFO @ Wed, 22 Jul 2020 13:48:58: 4000000 INFO @ Wed, 22 Jul 2020 13:48:59: 1000000 INFO @ Wed, 22 Jul 2020 13:49:01: 8000000 INFO @ Wed, 22 Jul 2020 13:49:07: 5000000 INFO @ Wed, 22 Jul 2020 13:49:09: 2000000 INFO @ Wed, 22 Jul 2020 13:49:10: 9000000 INFO @ Wed, 22 Jul 2020 13:49:17: 6000000 INFO @ Wed, 22 Jul 2020 13:49:18: 3000000 INFO @ Wed, 22 Jul 2020 13:49:20: 10000000 INFO @ Wed, 22 Jul 2020 13:49:26: 7000000 INFO @ Wed, 22 Jul 2020 13:49:28: 4000000 INFO @ Wed, 22 Jul 2020 13:49:29: 11000000 INFO @ Wed, 22 Jul 2020 13:49:36: 8000000 INFO @ Wed, 22 Jul 2020 13:49:37: 5000000 INFO @ Wed, 22 Jul 2020 13:49:39: 12000000 INFO @ Wed, 22 Jul 2020 13:49:45: 9000000 INFO @ Wed, 22 Jul 2020 13:49:47: 6000000 INFO @ Wed, 22 Jul 2020 13:49:48: 13000000 INFO @ Wed, 22 Jul 2020 13:49:55: 10000000 INFO @ Wed, 22 Jul 2020 13:49:56: 7000000 INFO @ Wed, 22 Jul 2020 13:49:58: 14000000 INFO @ Wed, 22 Jul 2020 13:50:04: 11000000 INFO @ Wed, 22 Jul 2020 13:50:06: 8000000 INFO @ Wed, 22 Jul 2020 13:50:07: 15000000 INFO @ Wed, 22 Jul 2020 13:50:14: 12000000 INFO @ Wed, 22 Jul 2020 13:50:15: 9000000 INFO @ Wed, 22 Jul 2020 13:50:17: 16000000 INFO @ Wed, 22 Jul 2020 13:50:23: 13000000 INFO @ Wed, 22 Jul 2020 13:50:25: 10000000 INFO @ Wed, 22 Jul 2020 13:50:27: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:50:32: 14000000 INFO @ Wed, 22 Jul 2020 13:50:34: 11000000 INFO @ Wed, 22 Jul 2020 13:50:36: 18000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:50:42: 15000000 INFO @ Wed, 22 Jul 2020 13:50:43: 12000000 INFO @ Wed, 22 Jul 2020 13:50:46: 19000000 INFO @ Wed, 22 Jul 2020 13:50:51: 16000000 INFO @ Wed, 22 Jul 2020 13:50:53: 13000000 INFO @ Wed, 22 Jul 2020 13:50:55: 20000000 INFO @ Wed, 22 Jul 2020 13:51:01: 17000000 INFO @ Wed, 22 Jul 2020 13:51:02: 14000000 INFO @ Wed, 22 Jul 2020 13:51:04: 21000000 INFO @ Wed, 22 Jul 2020 13:51:10: 18000000 INFO @ Wed, 22 Jul 2020 13:51:12: 15000000 INFO @ Wed, 22 Jul 2020 13:51:14: 22000000 INFO @ Wed, 22 Jul 2020 13:51:20: 19000000 INFO @ Wed, 22 Jul 2020 13:51:21: 16000000 INFO @ Wed, 22 Jul 2020 13:51:23: 23000000 INFO @ Wed, 22 Jul 2020 13:51:29: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:51:29: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:51:29: #1 total tags in treatment: 8390310 INFO @ Wed, 22 Jul 2020 13:51:29: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:51:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:51:29: #1 tags after filtering in treatment: 6332368 INFO @ Wed, 22 Jul 2020 13:51:29: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 22 Jul 2020 13:51:29: #1 finished! INFO @ Wed, 22 Jul 2020 13:51:29: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:51:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:51:29: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:51:29: 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 @ Wed, 22 Jul 2020 13:51:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.05_peaks.narrowPeak: No such file or directory INFO @ Wed, 22 Jul 2020 13:51:29: 20000000 pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:51:31: 17000000 INFO @ Wed, 22 Jul 2020 13:51:39: 21000000 INFO @ Wed, 22 Jul 2020 13:51:40: 18000000 INFO @ Wed, 22 Jul 2020 13:51:48: 22000000 INFO @ Wed, 22 Jul 2020 13:51:50: 19000000 INFO @ Wed, 22 Jul 2020 13:51:57: 23000000 INFO @ Wed, 22 Jul 2020 13:51:59: 20000000 INFO @ Wed, 22 Jul 2020 13:52:03: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:52:03: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:52:03: #1 total tags in treatment: 8390310 INFO @ Wed, 22 Jul 2020 13:52:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:52:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:52:03: #1 tags after filtering in treatment: 6332368 INFO @ Wed, 22 Jul 2020 13:52:03: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 22 Jul 2020 13:52:03: #1 finished! INFO @ Wed, 22 Jul 2020 13:52:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:52:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:52:03: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:52:03: 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 @ Wed, 22 Jul 2020 13:52:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.10_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/SRX7217634/SRX7217634.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:52:08: 21000000 INFO @ Wed, 22 Jul 2020 13:52:16: 22000000 INFO @ Wed, 22 Jul 2020 13:52:25: 23000000 INFO @ Wed, 22 Jul 2020 13:52:30: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:52:30: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:52:30: #1 total tags in treatment: 8390310 INFO @ Wed, 22 Jul 2020 13:52:30: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:52:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:52:30: #1 tags after filtering in treatment: 6332368 INFO @ Wed, 22 Jul 2020 13:52:30: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 22 Jul 2020 13:52:30: #1 finished! INFO @ Wed, 22 Jul 2020 13:52:30: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:52:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:52:30: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:52:30: 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 @ Wed, 22 Jul 2020 13:52:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.20_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/SRX7217634/SRX7217634.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217634/SRX7217634.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling