Job ID = 5791154 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 14,443,498 reads read : 28,886,996 reads written : 28,886,996 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: 00:19:09 14443498 reads; of these: 14443498 (100.00%) were paired; of these: 8158182 (56.48%) aligned concordantly 0 times 2252643 (15.60%) aligned concordantly exactly 1 time 4032673 (27.92%) aligned concordantly >1 times ---- 8158182 pairs aligned concordantly 0 times; of these: 1937640 (23.75%) aligned discordantly 1 time ---- 6220542 pairs aligned 0 times concordantly or discordantly; of these: 12441084 mates make up the pairs; of these: 6715048 (53.97%) aligned 0 times 308697 (2.48%) aligned exactly 1 time 5417339 (43.54%) aligned >1 times 76.75% overall alignment rate Time searching: 00:19:09 Overall time: 00:19:09 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 20 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] 3892944 / 8042367 = 0.4841 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 09:31:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.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 09:31:50: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:31:50: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:31:57: 1000000 INFO @ Wed, 22 Apr 2020 09:32:05: 2000000 INFO @ Wed, 22 Apr 2020 09:32:13: 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 Apr 2020 09:32:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.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 09:32:18: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:32:18: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:32:21: 4000000 INFO @ Wed, 22 Apr 2020 09:32:27: 1000000 INFO @ Wed, 22 Apr 2020 09:32:30: 5000000 INFO @ Wed, 22 Apr 2020 09:32:36: 2000000 INFO @ Wed, 22 Apr 2020 09:32:38: 6000000 INFO @ Wed, 22 Apr 2020 09:32:45: 3000000 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 09:32:47: 7000000 INFO @ Wed, 22 Apr 2020 09:32:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.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 09:32:48: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:32:48: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:32:54: 4000000 INFO @ Wed, 22 Apr 2020 09:32:55: 8000000 INFO @ Wed, 22 Apr 2020 09:32:57: 1000000 INFO @ Wed, 22 Apr 2020 09:33:03: 5000000 INFO @ Wed, 22 Apr 2020 09:33:04: 9000000 INFO @ Wed, 22 Apr 2020 09:33:06: 2000000 INFO @ Wed, 22 Apr 2020 09:33:11: 6000000 INFO @ Wed, 22 Apr 2020 09:33:13: 10000000 INFO @ Wed, 22 Apr 2020 09:33:15: 3000000 INFO @ Wed, 22 Apr 2020 09:33:20: 7000000 INFO @ Wed, 22 Apr 2020 09:33:21: 11000000 INFO @ Wed, 22 Apr 2020 09:33:24: 4000000 INFO @ Wed, 22 Apr 2020 09:33:28: 8000000 INFO @ Wed, 22 Apr 2020 09:33:30: 12000000 INFO @ Wed, 22 Apr 2020 09:33:33: 5000000 INFO @ Wed, 22 Apr 2020 09:33:37: 9000000 INFO @ Wed, 22 Apr 2020 09:33:39: 13000000 INFO @ Wed, 22 Apr 2020 09:33:42: 6000000 INFO @ Wed, 22 Apr 2020 09:33:46: 10000000 INFO @ Wed, 22 Apr 2020 09:33:48: 14000000 INFO @ Wed, 22 Apr 2020 09:33:50: 7000000 INFO @ Wed, 22 Apr 2020 09:33:51: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:33:51: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:33:51: #1 total tags in treatment: 2784748 INFO @ Wed, 22 Apr 2020 09:33:51: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:33:51: #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 09:33:51: #1 tags after filtering in treatment: 1635224 INFO @ Wed, 22 Apr 2020 09:33:51: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 09:33:51: #1 finished! INFO @ Wed, 22 Apr 2020 09:33:51: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:33:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:33:51: #2 number of paired peaks: 38 WARNING @ Wed, 22 Apr 2020 09:33:51: Too few paired peaks (38) 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 09:33:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.05_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/SRX6614948/SRX6614948.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:33:54: 11000000 INFO @ Wed, 22 Apr 2020 09:33:59: 8000000 INFO @ Wed, 22 Apr 2020 09:34:03: 12000000 INFO @ Wed, 22 Apr 2020 09:34:07: 9000000 INFO @ Wed, 22 Apr 2020 09:34:12: 13000000 INFO @ Wed, 22 Apr 2020 09:34:16: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 09:34:21: 14000000 INFO @ Wed, 22 Apr 2020 09:34:24: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:34:24: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:34:24: #1 total tags in treatment: 2784748 INFO @ Wed, 22 Apr 2020 09:34:24: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:34:24: #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 09:34:24: #1 tags after filtering in treatment: 1635224 INFO @ Wed, 22 Apr 2020 09:34:24: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 09:34:24: #1 finished! INFO @ Wed, 22 Apr 2020 09:34:24: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:34:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:34:24: #2 number of paired peaks: 38 WARNING @ Wed, 22 Apr 2020 09:34:24: Too few paired peaks (38) 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 09:34:24: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 09:34:25: 11000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.10_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/SRX6614948/SRX6614948.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 09:34:33: 12000000 INFO @ Wed, 22 Apr 2020 09:34:41: 13000000 INFO @ Wed, 22 Apr 2020 09:34:49: 14000000 INFO @ Wed, 22 Apr 2020 09:34:52: #1 tag size is determined as 151 bps INFO @ Wed, 22 Apr 2020 09:34:52: #1 tag size = 151 INFO @ Wed, 22 Apr 2020 09:34:52: #1 total tags in treatment: 2784748 INFO @ Wed, 22 Apr 2020 09:34:52: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:34:52: #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 09:34:52: #1 tags after filtering in treatment: 1635224 INFO @ Wed, 22 Apr 2020 09:34:52: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 09:34:52: #1 finished! INFO @ Wed, 22 Apr 2020 09:34:52: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:34:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:34:52: #2 number of paired peaks: 38 WARNING @ Wed, 22 Apr 2020 09:34:52: Too few paired peaks (38) 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 09:34:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.20_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/SRX6614948/SRX6614948.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614948/SRX6614948.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling