Job ID = 5791144 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 4,446,089 reads read : 8,892,178 reads written : 8,892,178 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: 00:03:48 4446089 reads; of these: 4446089 (100.00%) were paired; of these: 1428119 (32.12%) aligned concordantly 0 times 1362257 (30.64%) aligned concordantly exactly 1 time 1655713 (37.24%) aligned concordantly >1 times ---- 1428119 pairs aligned concordantly 0 times; of these: 150256 (10.52%) aligned discordantly 1 time ---- 1277863 pairs aligned 0 times concordantly or discordantly; of these: 2555726 mates make up the pairs; of these: 1974049 (77.24%) aligned 0 times 84962 (3.32%) aligned exactly 1 time 496715 (19.44%) aligned >1 times 77.80% overall alignment rate Time searching: 00:03:48 Overall time: 00:03:48 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_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] 1510836 / 3144990 = 0.4804 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 08:47:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.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 08:47:40: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:47:40: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:47:47: 1000000 INFO @ Wed, 22 Apr 2020 08:47:54: 2000000 INFO @ Wed, 22 Apr 2020 08:48:00: 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 08:48:06: #1 tag size is determined as 101 bps INFO @ Wed, 22 Apr 2020 08:48:06: #1 tag size = 101 INFO @ Wed, 22 Apr 2020 08:48:06: #1 total tags in treatment: 1555235 INFO @ Wed, 22 Apr 2020 08:48:06: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:48:06: #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 08:48:06: #1 tags after filtering in treatment: 1050116 INFO @ Wed, 22 Apr 2020 08:48:06: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Apr 2020 08:48:06: #1 finished! INFO @ Wed, 22 Apr 2020 08:48:06: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:48:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:48:06: #2 number of paired peaks: 31 WARNING @ Wed, 22 Apr 2020 08:48:06: Too few paired peaks (31) 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 08:48:06: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 08:48:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.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 08:48:09: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:48:09: #1 read treatment tags... cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.05_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/SRX6614937/SRX6614937.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:48:16: 1000000 INFO @ Wed, 22 Apr 2020 08:48:22: 2000000 INFO @ Wed, 22 Apr 2020 08:48:28: 3000000 INFO @ Wed, 22 Apr 2020 08:48:33: #1 tag size is determined as 101 bps INFO @ Wed, 22 Apr 2020 08:48:33: #1 tag size = 101 INFO @ Wed, 22 Apr 2020 08:48:33: #1 total tags in treatment: 1555235 INFO @ Wed, 22 Apr 2020 08:48:33: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:48:33: #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 08:48:33: #1 tags after filtering in treatment: 1050116 INFO @ Wed, 22 Apr 2020 08:48:33: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Apr 2020 08:48:33: #1 finished! INFO @ Wed, 22 Apr 2020 08:48:33: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:48:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:48:33: #2 number of paired peaks: 31 WARNING @ Wed, 22 Apr 2020 08:48:33: Too few paired peaks (31) 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 08:48:33: Process for pairing-model is terminated! 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 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.10_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/SRX6614937/SRX6614937.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:48:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.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 08:48:40: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:48:40: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:48:46: 1000000 INFO @ Wed, 22 Apr 2020 08:48:52: 2000000 INFO @ Wed, 22 Apr 2020 08:48:58: 3000000 INFO @ Wed, 22 Apr 2020 08:49:04: #1 tag size is determined as 101 bps INFO @ Wed, 22 Apr 2020 08:49:04: #1 tag size = 101 INFO @ Wed, 22 Apr 2020 08:49:04: #1 total tags in treatment: 1555235 INFO @ Wed, 22 Apr 2020 08:49:04: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:49:04: #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 08:49:04: #1 tags after filtering in treatment: 1050116 INFO @ Wed, 22 Apr 2020 08:49:04: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Apr 2020 08:49:04: #1 finished! INFO @ Wed, 22 Apr 2020 08:49:04: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:49:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:49:04: #2 number of paired peaks: 31 WARNING @ Wed, 22 Apr 2020 08:49:04: Too few paired peaks (31) 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 08:49:04: Process for pairing-model is terminated! BedGraph に変換しました。 BigWig に変換中... cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.20_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/SRX6614937/SRX6614937.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614937/SRX6614937.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。