Job ID = 5791177 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 12,303,556 reads read : 24,607,112 reads written : 24,607,112 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:13:43 12303556 reads; of these: 12303556 (100.00%) were paired; of these: 6169596 (50.14%) aligned concordantly 0 times 4945397 (40.19%) aligned concordantly exactly 1 time 1188563 (9.66%) aligned concordantly >1 times ---- 6169596 pairs aligned concordantly 0 times; of these: 2276983 (36.91%) aligned discordantly 1 time ---- 3892613 pairs aligned 0 times concordantly or discordantly; of these: 7785226 mates make up the pairs; of these: 6363620 (81.74%) aligned 0 times 197818 (2.54%) aligned exactly 1 time 1223788 (15.72%) aligned >1 times 74.14% overall alignment rate Time searching: 00:13:43 Overall time: 00:13:43 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] 1700583 / 8262809 = 0.2058 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 Apr 2020 09:27:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.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 Apr 2020 09:27:43: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:27:43: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:27:53: 1000000 INFO @ Wed, 22 Apr 2020 09:28:02: 2000000 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 Apr 2020 09:28:12: 3000000 INFO @ Wed, 22 Apr 2020 09:28:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.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 Apr 2020 09:28:13: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:28:13: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:28:22: 4000000 INFO @ Wed, 22 Apr 2020 09:28:24: 1000000 INFO @ Wed, 22 Apr 2020 09:28:32: 5000000 INFO @ Wed, 22 Apr 2020 09:28:34: 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 Apr 2020 09:28:42: 6000000 INFO @ Wed, 22 Apr 2020 09:28:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.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 Apr 2020 09:28:43: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:28:43: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:28:44: 3000000 INFO @ Wed, 22 Apr 2020 09:28:53: 7000000 INFO @ Wed, 22 Apr 2020 09:28:54: 1000000 INFO @ Wed, 22 Apr 2020 09:28:55: 4000000 INFO @ Wed, 22 Apr 2020 09:29:03: 8000000 INFO @ Wed, 22 Apr 2020 09:29:04: 2000000 INFO @ Wed, 22 Apr 2020 09:29:05: 5000000 INFO @ Wed, 22 Apr 2020 09:29:13: 9000000 INFO @ Wed, 22 Apr 2020 09:29:14: 3000000 INFO @ Wed, 22 Apr 2020 09:29:16: 6000000 INFO @ Wed, 22 Apr 2020 09:29:24: 10000000 INFO @ Wed, 22 Apr 2020 09:29:25: 4000000 INFO @ Wed, 22 Apr 2020 09:29:26: 7000000 INFO @ Wed, 22 Apr 2020 09:29:34: 11000000 INFO @ Wed, 22 Apr 2020 09:29:35: 5000000 INFO @ Wed, 22 Apr 2020 09:29:36: 8000000 INFO @ Wed, 22 Apr 2020 09:29:44: 12000000 INFO @ Wed, 22 Apr 2020 09:29:45: 6000000 INFO @ Wed, 22 Apr 2020 09:29:47: 9000000 INFO @ Wed, 22 Apr 2020 09:29:54: 13000000 INFO @ Wed, 22 Apr 2020 09:29:55: 7000000 INFO @ Wed, 22 Apr 2020 09:29:57: 10000000 INFO @ Wed, 22 Apr 2020 09:30:05: 14000000 INFO @ Wed, 22 Apr 2020 09:30:06: 8000000 INFO @ Wed, 22 Apr 2020 09:30:07: 11000000 INFO @ Wed, 22 Apr 2020 09:30:13: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:30:13: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:30:13: #1 total tags in treatment: 4774302 INFO @ Wed, 22 Apr 2020 09:30:13: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:30:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:30:13: #1 tags after filtering in treatment: 3137148 INFO @ Wed, 22 Apr 2020 09:30:13: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Apr 2020 09:30:13: #1 finished! INFO @ Wed, 22 Apr 2020 09:30:13: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:30:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:30:13: #2 number of paired peaks: 22 WARNING @ Wed, 22 Apr 2020 09:30:13: Too few paired peaks (22) 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 Apr 2020 09:30:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.05_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/SRX6614969/SRX6614969.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:30:16: 9000000 INFO @ Wed, 22 Apr 2020 09:30:17: 12000000 INFO @ Wed, 22 Apr 2020 09:30:26: 10000000 INFO @ Wed, 22 Apr 2020 09:30:27: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 09:30:36: 11000000 INFO @ Wed, 22 Apr 2020 09:30:38: 14000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 09:30:47: 12000000 INFO @ Wed, 22 Apr 2020 09:30:47: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:30:47: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:30:47: #1 total tags in treatment: 4774302 INFO @ Wed, 22 Apr 2020 09:30:47: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:30:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:30:47: #1 tags after filtering in treatment: 3137148 INFO @ Wed, 22 Apr 2020 09:30:47: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Apr 2020 09:30:47: #1 finished! INFO @ Wed, 22 Apr 2020 09:30:47: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:30:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:30:47: #2 number of paired peaks: 22 WARNING @ Wed, 22 Apr 2020 09:30:47: Too few paired peaks (22) 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 Apr 2020 09:30:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.10_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/SRX6614969/SRX6614969.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:30:56: 13000000 INFO @ Wed, 22 Apr 2020 09:31:06: 14000000 INFO @ Wed, 22 Apr 2020 09:31:14: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:31:14: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:31:14: #1 total tags in treatment: 4774302 INFO @ Wed, 22 Apr 2020 09:31:14: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:31:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:31:14: #1 tags after filtering in treatment: 3137148 INFO @ Wed, 22 Apr 2020 09:31:14: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Apr 2020 09:31:14: #1 finished! INFO @ Wed, 22 Apr 2020 09:31:14: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:31:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:31:14: #2 number of paired peaks: 22 WARNING @ Wed, 22 Apr 2020 09:31:14: Too few paired peaks (22) 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 Apr 2020 09:31:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.20_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/SRX6614969/SRX6614969.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614969/SRX6614969.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling