Job ID = 5791282 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 26,884,592 reads read : 53,769,184 reads written : 53,769,184 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: 00:09:53 26884592 reads; of these: 26884592 (100.00%) were paired; of these: 10367216 (38.56%) aligned concordantly 0 times 14961059 (55.65%) aligned concordantly exactly 1 time 1556317 (5.79%) aligned concordantly >1 times ---- 10367216 pairs aligned concordantly 0 times; of these: 42271 (0.41%) aligned discordantly 1 time ---- 10324945 pairs aligned 0 times concordantly or discordantly; of these: 20649890 mates make up the pairs; of these: 20198668 (97.81%) aligned 0 times 395296 (1.91%) aligned exactly 1 time 55926 (0.27%) aligned >1 times 62.43% overall alignment rate Time searching: 00:09:53 Overall time: 00:09:53 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] 8621986 / 16525541 = 0.5217 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 09:52:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.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 09:52:32: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:52:32: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:52:37: 1000000 INFO @ Wed, 22 Apr 2020 09:52:42: 2000000 INFO @ Wed, 22 Apr 2020 09:52:47: 3000000 INFO @ Wed, 22 Apr 2020 09:52:52: 4000000 INFO @ Wed, 22 Apr 2020 09:52:57: 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 @ Wed, 22 Apr 2020 09:53:02: 6000000 INFO @ Wed, 22 Apr 2020 09:53:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.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 09:53:02: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:53:02: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:53:07: 7000000 INFO @ Wed, 22 Apr 2020 09:53:07: 1000000 INFO @ Wed, 22 Apr 2020 09:53:12: 8000000 INFO @ Wed, 22 Apr 2020 09:53:12: 2000000 INFO @ Wed, 22 Apr 2020 09:53:16: 9000000 INFO @ Wed, 22 Apr 2020 09:53:17: 3000000 INFO @ Wed, 22 Apr 2020 09:53:21: 10000000 INFO @ Wed, 22 Apr 2020 09:53:22: 4000000 INFO @ Wed, 22 Apr 2020 09:53:26: 11000000 INFO @ Wed, 22 Apr 2020 09:53:27: 5000000 INFO @ Wed, 22 Apr 2020 09:53:31: 12000000 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 09:53:32: 6000000 INFO @ Wed, 22 Apr 2020 09:53:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.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 09:53:32: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:53:32: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:53:35: 13000000 INFO @ Wed, 22 Apr 2020 09:53:37: 7000000 INFO @ Wed, 22 Apr 2020 09:53:37: 1000000 INFO @ Wed, 22 Apr 2020 09:53:40: 14000000 INFO @ Wed, 22 Apr 2020 09:53:42: 8000000 INFO @ Wed, 22 Apr 2020 09:53:43: 2000000 INFO @ Wed, 22 Apr 2020 09:53:45: 15000000 INFO @ Wed, 22 Apr 2020 09:53:46: 9000000 INFO @ Wed, 22 Apr 2020 09:53:48: 3000000 INFO @ Wed, 22 Apr 2020 09:53:49: 16000000 INFO @ Wed, 22 Apr 2020 09:53:51: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:53:51: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:53:51: #1 total tags in treatment: 7898318 INFO @ Wed, 22 Apr 2020 09:53:51: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:53:51: #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 09:53:51: #1 tags after filtering in treatment: 6394445 INFO @ Wed, 22 Apr 2020 09:53:51: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 22 Apr 2020 09:53:51: #1 finished! INFO @ Wed, 22 Apr 2020 09:53:51: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:53:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:53:51: 10000000 INFO @ Wed, 22 Apr 2020 09:53:52: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:53:52: 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 Apr 2020 09:53:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.05_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/SRX7409541/SRX7409541.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:53:53: 4000000 INFO @ Wed, 22 Apr 2020 09:53:56: 11000000 INFO @ Wed, 22 Apr 2020 09:53:58: 5000000 INFO @ Wed, 22 Apr 2020 09:54:01: 12000000 INFO @ Wed, 22 Apr 2020 09:54:03: 6000000 INFO @ Wed, 22 Apr 2020 09:54:05: 13000000 INFO @ Wed, 22 Apr 2020 09:54:08: 7000000 INFO @ Wed, 22 Apr 2020 09:54:10: 14000000 INFO @ Wed, 22 Apr 2020 09:54:13: 8000000 INFO @ Wed, 22 Apr 2020 09:54:14: 15000000 INFO @ Wed, 22 Apr 2020 09:54:17: 9000000 INFO @ Wed, 22 Apr 2020 09:54:19: 16000000 INFO @ Wed, 22 Apr 2020 09:54:20: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:54:20: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:54:20: #1 total tags in treatment: 7898318 INFO @ Wed, 22 Apr 2020 09:54:20: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:54:20: #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 09:54:21: #1 tags after filtering in treatment: 6394445 INFO @ Wed, 22 Apr 2020 09:54:21: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 22 Apr 2020 09:54:21: #1 finished! INFO @ Wed, 22 Apr 2020 09:54:21: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:54:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:54:21: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:54:21: 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 Apr 2020 09:54:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.10_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/SRX7409541/SRX7409541.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:54:22: 10000000 INFO @ Wed, 22 Apr 2020 09:54:27: 11000000 INFO @ Wed, 22 Apr 2020 09:54:32: 12000000 INFO @ Wed, 22 Apr 2020 09:54:37: 13000000 INFO @ Wed, 22 Apr 2020 09:54:41: 14000000 INFO @ Wed, 22 Apr 2020 09:54:46: 15000000 INFO @ Wed, 22 Apr 2020 09:54:51: 16000000 INFO @ Wed, 22 Apr 2020 09:54:52: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:54:52: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:54:52: #1 total tags in treatment: 7898318 INFO @ Wed, 22 Apr 2020 09:54:52: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:54:52: #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 09:54:52: #1 tags after filtering in treatment: 6394445 INFO @ Wed, 22 Apr 2020 09:54:52: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 22 Apr 2020 09:54:52: #1 finished! INFO @ Wed, 22 Apr 2020 09:54:52: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:54:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:54:53: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:54:53: 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 Apr 2020 09:54:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.20_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/SRX7409541/SRX7409541.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409541/SRX7409541.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。