Job ID = 10223913 SRX = SRX4623303 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12197018 spots for SRR7767708/SRR7767708.sra Written 12197018 spots for SRR7767708/SRR7767708.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: 00:04:04 12197018 reads; of these: 12197018 (100.00%) were paired; of these: 1606319 (13.17%) aligned concordantly 0 times 7689553 (63.04%) aligned concordantly exactly 1 time 2901146 (23.79%) aligned concordantly >1 times ---- 1606319 pairs aligned concordantly 0 times; of these: 322037 (20.05%) aligned discordantly 1 time ---- 1284282 pairs aligned 0 times concordantly or discordantly; of these: 2568564 mates make up the pairs; of these: 2182217 (84.96%) aligned 0 times 149379 (5.82%) aligned exactly 1 time 236968 (9.23%) aligned >1 times 91.05% overall alignment rate Time searching: 00:04:04 Overall time: 00:04:04 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 8 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] 975199 / 10905369 = 0.0894 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 @ Fri, 16 Oct 2020 08:52:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.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 @ Fri, 16 Oct 2020 08:52:29: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:52:29: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:52:34: 1000000 INFO @ Fri, 16 Oct 2020 08:52:39: 2000000 INFO @ Fri, 16 Oct 2020 08:52:44: 3000000 INFO @ Fri, 16 Oct 2020 08:52:49: 4000000 INFO @ Fri, 16 Oct 2020 08:52:54: 5000000 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 @ Fri, 16 Oct 2020 08:52:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.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 @ Fri, 16 Oct 2020 08:52:58: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:52:58: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:52:59: 6000000 INFO @ Fri, 16 Oct 2020 08:53:04: 1000000 INFO @ Fri, 16 Oct 2020 08:53:05: 7000000 INFO @ Fri, 16 Oct 2020 08:53:09: 2000000 INFO @ Fri, 16 Oct 2020 08:53:11: 8000000 INFO @ Fri, 16 Oct 2020 08:53:14: 3000000 INFO @ Fri, 16 Oct 2020 08:53:16: 9000000 INFO @ Fri, 16 Oct 2020 08:53:19: 4000000 INFO @ Fri, 16 Oct 2020 08:53:22: 10000000 INFO @ Fri, 16 Oct 2020 08:53:24: 5000000 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 @ Fri, 16 Oct 2020 08:53:28: 11000000 INFO @ Fri, 16 Oct 2020 08:53:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.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 @ Fri, 16 Oct 2020 08:53:28: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:53:28: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:53:30: 6000000 INFO @ Fri, 16 Oct 2020 08:53:34: 12000000 INFO @ Fri, 16 Oct 2020 08:53:34: 1000000 INFO @ Fri, 16 Oct 2020 08:53:35: 7000000 INFO @ Fri, 16 Oct 2020 08:53:39: 13000000 INFO @ Fri, 16 Oct 2020 08:53:40: 2000000 INFO @ Fri, 16 Oct 2020 08:53:40: 8000000 INFO @ Fri, 16 Oct 2020 08:53:45: 14000000 INFO @ Fri, 16 Oct 2020 08:53:45: 3000000 INFO @ Fri, 16 Oct 2020 08:53:45: 9000000 INFO @ Fri, 16 Oct 2020 08:53:50: 10000000 INFO @ Fri, 16 Oct 2020 08:53:50: 15000000 INFO @ Fri, 16 Oct 2020 08:53:51: 4000000 INFO @ Fri, 16 Oct 2020 08:53:56: 11000000 INFO @ Fri, 16 Oct 2020 08:53:56: 16000000 INFO @ Fri, 16 Oct 2020 08:53:56: 5000000 INFO @ Fri, 16 Oct 2020 08:54:01: 12000000 INFO @ Fri, 16 Oct 2020 08:54:02: 6000000 INFO @ Fri, 16 Oct 2020 08:54:02: 17000000 INFO @ Fri, 16 Oct 2020 08:54:06: 13000000 INFO @ Fri, 16 Oct 2020 08:54:08: 7000000 INFO @ Fri, 16 Oct 2020 08:54:08: 18000000 INFO @ Fri, 16 Oct 2020 08:54:11: 14000000 INFO @ Fri, 16 Oct 2020 08:54:13: 8000000 INFO @ Fri, 16 Oct 2020 08:54:14: 19000000 INFO @ Fri, 16 Oct 2020 08:54:16: 15000000 INFO @ Fri, 16 Oct 2020 08:54:19: 9000000 INFO @ Fri, 16 Oct 2020 08:54:20: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 08:54:21: 16000000 INFO @ Fri, 16 Oct 2020 08:54:22: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:54:22: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:54:22: #1 total tags in treatment: 9623935 INFO @ Fri, 16 Oct 2020 08:54:22: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:54:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:54:22: #1 tags after filtering in treatment: 6622980 INFO @ Fri, 16 Oct 2020 08:54:22: #1 Redundant rate of treatment: 0.31 INFO @ Fri, 16 Oct 2020 08:54:22: #1 finished! INFO @ Fri, 16 Oct 2020 08:54:22: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:54:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:54:22: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:54:22: 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 @ Fri, 16 Oct 2020 08:54:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.05_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/SRX4623303/SRX4623303.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 08:54:25: 10000000 INFO @ Fri, 16 Oct 2020 08:54:27: 17000000 INFO @ Fri, 16 Oct 2020 08:54:31: 11000000 INFO @ Fri, 16 Oct 2020 08:54:32: 18000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 08:54:37: 12000000 INFO @ Fri, 16 Oct 2020 08:54:37: 19000000 INFO @ Fri, 16 Oct 2020 08:54:42: 20000000 INFO @ Fri, 16 Oct 2020 08:54:42: 13000000 INFO @ Fri, 16 Oct 2020 08:54:44: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:54:44: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:54:44: #1 total tags in treatment: 9623935 INFO @ Fri, 16 Oct 2020 08:54:44: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:54:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:54:44: #1 tags after filtering in treatment: 6622980 INFO @ Fri, 16 Oct 2020 08:54:44: #1 Redundant rate of treatment: 0.31 INFO @ Fri, 16 Oct 2020 08:54:44: #1 finished! INFO @ Fri, 16 Oct 2020 08:54:44: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:54:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:54:44: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:54:44: 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 @ Fri, 16 Oct 2020 08:54:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.10_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/SRX4623303/SRX4623303.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 08:54:48: 14000000 INFO @ Fri, 16 Oct 2020 08:54:53: 15000000 INFO @ Fri, 16 Oct 2020 08:54:59: 16000000 INFO @ Fri, 16 Oct 2020 08:55:04: 17000000 INFO @ Fri, 16 Oct 2020 08:55:09: 18000000 INFO @ Fri, 16 Oct 2020 08:55:15: 19000000 INFO @ Fri, 16 Oct 2020 08:55:20: 20000000 INFO @ Fri, 16 Oct 2020 08:55:21: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:55:21: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:55:21: #1 total tags in treatment: 9623935 INFO @ Fri, 16 Oct 2020 08:55:21: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:55:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:55:21: #1 tags after filtering in treatment: 6622980 INFO @ Fri, 16 Oct 2020 08:55:21: #1 Redundant rate of treatment: 0.31 INFO @ Fri, 16 Oct 2020 08:55:21: #1 finished! INFO @ Fri, 16 Oct 2020 08:55:21: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:55:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:55:22: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:55:22: 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 @ Fri, 16 Oct 2020 08:55:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.20_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/SRX4623303/SRX4623303.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623303/SRX4623303.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling