Job ID = 7108813 SRX = SRX8036496 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 11199078 spots for SRR11458943/SRR11458943.sra Written 11199078 spots for SRR11458943/SRR11458943.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: 00:13:33 11199078 reads; of these: 11199078 (100.00%) were paired; of these: 744825 (6.65%) aligned concordantly 0 times 8166223 (72.92%) aligned concordantly exactly 1 time 2288030 (20.43%) aligned concordantly >1 times ---- 744825 pairs aligned concordantly 0 times; of these: 105081 (14.11%) aligned discordantly 1 time ---- 639744 pairs aligned 0 times concordantly or discordantly; of these: 1279488 mates make up the pairs; of these: 1138029 (88.94%) aligned 0 times 70854 (5.54%) aligned exactly 1 time 70605 (5.52%) aligned >1 times 94.92% overall alignment rate Time searching: 00:13:33 Overall time: 00:13:34 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] 2002255 / 10546734 = 0.1898 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 14:02:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.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 14:02:35: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:02:35: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:02:43: 1000000 INFO @ Wed, 22 Jul 2020 14:02:51: 2000000 INFO @ Wed, 22 Jul 2020 14:02:58: 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 14:03:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.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 14:03:05: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:03:05: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:03:06: 4000000 INFO @ Wed, 22 Jul 2020 14:03:16: 1000000 INFO @ Wed, 22 Jul 2020 14:03:17: 5000000 INFO @ Wed, 22 Jul 2020 14:03:27: 6000000 INFO @ Wed, 22 Jul 2020 14:03:28: 2000000 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 14:03:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.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 14:03:35: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:03:35: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:03:38: 7000000 INFO @ Wed, 22 Jul 2020 14:03:39: 3000000 INFO @ Wed, 22 Jul 2020 14:03:46: 1000000 INFO @ Wed, 22 Jul 2020 14:03:48: 8000000 INFO @ Wed, 22 Jul 2020 14:03:50: 4000000 INFO @ Wed, 22 Jul 2020 14:03:57: 2000000 INFO @ Wed, 22 Jul 2020 14:03:59: 9000000 INFO @ Wed, 22 Jul 2020 14:04:02: 5000000 INFO @ Wed, 22 Jul 2020 14:04:08: 3000000 INFO @ Wed, 22 Jul 2020 14:04:10: 10000000 INFO @ Wed, 22 Jul 2020 14:04:13: 6000000 INFO @ Wed, 22 Jul 2020 14:04:18: 4000000 INFO @ Wed, 22 Jul 2020 14:04:21: 11000000 INFO @ Wed, 22 Jul 2020 14:04:24: 7000000 INFO @ Wed, 22 Jul 2020 14:04:29: 5000000 INFO @ Wed, 22 Jul 2020 14:04:31: 12000000 INFO @ Wed, 22 Jul 2020 14:04:36: 8000000 INFO @ Wed, 22 Jul 2020 14:04:40: 6000000 INFO @ Wed, 22 Jul 2020 14:04:42: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:04:47: 9000000 INFO @ Wed, 22 Jul 2020 14:04:51: 7000000 INFO @ Wed, 22 Jul 2020 14:04:52: 14000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:04:59: 10000000 INFO @ Wed, 22 Jul 2020 14:05:02: 8000000 INFO @ Wed, 22 Jul 2020 14:05:03: 15000000 INFO @ Wed, 22 Jul 2020 14:05:10: 11000000 INFO @ Wed, 22 Jul 2020 14:05:13: 9000000 INFO @ Wed, 22 Jul 2020 14:05:14: 16000000 INFO @ Wed, 22 Jul 2020 14:05:21: 12000000 INFO @ Wed, 22 Jul 2020 14:05:24: 10000000 INFO @ Wed, 22 Jul 2020 14:05:25: 17000000 INFO @ Wed, 22 Jul 2020 14:05:28: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:05:28: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:05:28: #1 total tags in treatment: 8460957 INFO @ Wed, 22 Jul 2020 14:05:28: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:05:28: #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 14:05:28: #1 tags after filtering in treatment: 5976929 INFO @ Wed, 22 Jul 2020 14:05:28: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 14:05:28: #1 finished! INFO @ Wed, 22 Jul 2020 14:05:28: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:05:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:05:28: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:05:28: 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 14:05:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.05_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/SRX8036496/SRX8036496.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:05:32: 13000000 INFO @ Wed, 22 Jul 2020 14:05:35: 11000000 INFO @ Wed, 22 Jul 2020 14:05:44: 14000000 INFO @ Wed, 22 Jul 2020 14:05:46: 12000000 INFO @ Wed, 22 Jul 2020 14:05:55: 15000000 INFO @ Wed, 22 Jul 2020 14:05:57: 13000000 INFO @ Wed, 22 Jul 2020 14:06:07: 16000000 INFO @ Wed, 22 Jul 2020 14:06:08: 14000000 INFO @ Wed, 22 Jul 2020 14:06:18: 17000000 INFO @ Wed, 22 Jul 2020 14:06:19: 15000000 INFO @ Wed, 22 Jul 2020 14:06:21: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:06:21: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:06:21: #1 total tags in treatment: 8460957 INFO @ Wed, 22 Jul 2020 14:06:21: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:06:21: #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 14:06:21: #1 tags after filtering in treatment: 5976929 INFO @ Wed, 22 Jul 2020 14:06:21: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 14:06:21: #1 finished! INFO @ Wed, 22 Jul 2020 14:06:21: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:06:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:06:21: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:06:21: 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 14:06:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.10_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/SRX8036496/SRX8036496.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:06:29: 16000000 INFO @ Wed, 22 Jul 2020 14:06:38: 17000000 INFO @ Wed, 22 Jul 2020 14:06:40: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:06:40: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:06:40: #1 total tags in treatment: 8460957 INFO @ Wed, 22 Jul 2020 14:06:40: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:06:40: #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 14:06:41: #1 tags after filtering in treatment: 5976929 INFO @ Wed, 22 Jul 2020 14:06:41: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 14:06:41: #1 finished! INFO @ Wed, 22 Jul 2020 14:06:41: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:06:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:06:41: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:06:41: 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 14:06:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.20_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/SRX8036496/SRX8036496.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036496/SRX8036496.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling