Job ID = 5791292 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 27,894,048 reads read : 55,788,096 reads written : 55,788,096 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: 00:14:07 27894048 reads; of these: 27894048 (100.00%) were paired; of these: 966312 (3.46%) aligned concordantly 0 times 24477550 (87.75%) aligned concordantly exactly 1 time 2450186 (8.78%) aligned concordantly >1 times ---- 966312 pairs aligned concordantly 0 times; of these: 128874 (13.34%) aligned discordantly 1 time ---- 837438 pairs aligned 0 times concordantly or discordantly; of these: 1674876 mates make up the pairs; of these: 1324304 (79.07%) aligned 0 times 285543 (17.05%) aligned exactly 1 time 65029 (3.88%) aligned >1 times 97.63% overall alignment rate Time searching: 00:14:07 Overall time: 00:14:07 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 24 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] 9055995 / 26939713 = 0.3362 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 10:02:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.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 10:02:13: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:02:13: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:02:18: 1000000 INFO @ Wed, 22 Apr 2020 10:02:23: 2000000 INFO @ Wed, 22 Apr 2020 10:02:28: 3000000 INFO @ Wed, 22 Apr 2020 10:02:33: 4000000 INFO @ Wed, 22 Apr 2020 10:02:38: 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 10:02:42: 6000000 INFO @ Wed, 22 Apr 2020 10:02:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.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 10:02:43: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:02:43: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:02:48: 7000000 INFO @ Wed, 22 Apr 2020 10:02:48: 1000000 INFO @ Wed, 22 Apr 2020 10:02:52: 8000000 INFO @ Wed, 22 Apr 2020 10:02:53: 2000000 INFO @ Wed, 22 Apr 2020 10:02:57: 9000000 INFO @ Wed, 22 Apr 2020 10:02:58: 3000000 INFO @ Wed, 22 Apr 2020 10:03:02: 10000000 INFO @ Wed, 22 Apr 2020 10:03:03: 4000000 INFO @ Wed, 22 Apr 2020 10:03:07: 11000000 INFO @ Wed, 22 Apr 2020 10:03:08: 5000000 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 10:03:12: 12000000 INFO @ Wed, 22 Apr 2020 10:03:13: 6000000 INFO @ Wed, 22 Apr 2020 10:03:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.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 10:03:13: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:03:13: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:03:16: 13000000 INFO @ Wed, 22 Apr 2020 10:03:18: 7000000 INFO @ Wed, 22 Apr 2020 10:03:21: 14000000 INFO @ Wed, 22 Apr 2020 10:03:22: 1000000 INFO @ Wed, 22 Apr 2020 10:03:23: 8000000 INFO @ Wed, 22 Apr 2020 10:03:26: 15000000 INFO @ Wed, 22 Apr 2020 10:03:28: 9000000 INFO @ Wed, 22 Apr 2020 10:03:31: 2000000 INFO @ Wed, 22 Apr 2020 10:03:31: 16000000 INFO @ Wed, 22 Apr 2020 10:03:33: 10000000 INFO @ Wed, 22 Apr 2020 10:03:36: 17000000 INFO @ Wed, 22 Apr 2020 10:03:38: 11000000 INFO @ Wed, 22 Apr 2020 10:03:41: 18000000 INFO @ Wed, 22 Apr 2020 10:03:42: 3000000 INFO @ Wed, 22 Apr 2020 10:03:43: 12000000 INFO @ Wed, 22 Apr 2020 10:03:46: 19000000 INFO @ Wed, 22 Apr 2020 10:03:48: 13000000 INFO @ Wed, 22 Apr 2020 10:03:51: 20000000 INFO @ Wed, 22 Apr 2020 10:03:52: 14000000 INFO @ Wed, 22 Apr 2020 10:03:53: 4000000 INFO @ Wed, 22 Apr 2020 10:03:56: 21000000 INFO @ Wed, 22 Apr 2020 10:03:57: 15000000 INFO @ Wed, 22 Apr 2020 10:04:00: 22000000 INFO @ Wed, 22 Apr 2020 10:04:02: 16000000 INFO @ Wed, 22 Apr 2020 10:04:03: 5000000 INFO @ Wed, 22 Apr 2020 10:04:05: 23000000 INFO @ Wed, 22 Apr 2020 10:04:07: 17000000 INFO @ Wed, 22 Apr 2020 10:04:10: 24000000 INFO @ Wed, 22 Apr 2020 10:04:12: 18000000 INFO @ Wed, 22 Apr 2020 10:04:15: 25000000 INFO @ Wed, 22 Apr 2020 10:04:16: 6000000 INFO @ Wed, 22 Apr 2020 10:04:17: 19000000 INFO @ Wed, 22 Apr 2020 10:04:20: 26000000 INFO @ Wed, 22 Apr 2020 10:04:22: 20000000 INFO @ Wed, 22 Apr 2020 10:04:25: 27000000 INFO @ Wed, 22 Apr 2020 10:04:27: 21000000 INFO @ Wed, 22 Apr 2020 10:04:29: 7000000 INFO @ Wed, 22 Apr 2020 10:04:30: 28000000 INFO @ Wed, 22 Apr 2020 10:04:31: 22000000 INFO @ Wed, 22 Apr 2020 10:04:36: 29000000 INFO @ Wed, 22 Apr 2020 10:04:36: 23000000 INFO @ Wed, 22 Apr 2020 10:04:39: 8000000 INFO @ Wed, 22 Apr 2020 10:04:41: 30000000 INFO @ Wed, 22 Apr 2020 10:04:41: 24000000 INFO @ Wed, 22 Apr 2020 10:04:46: 31000000 INFO @ Wed, 22 Apr 2020 10:04:47: 25000000 INFO @ Wed, 22 Apr 2020 10:04:49: 9000000 INFO @ Wed, 22 Apr 2020 10:04:51: 32000000 INFO @ Wed, 22 Apr 2020 10:04:52: 26000000 INFO @ Wed, 22 Apr 2020 10:04:56: 33000000 INFO @ Wed, 22 Apr 2020 10:04:58: 27000000 INFO @ Wed, 22 Apr 2020 10:04:58: 10000000 INFO @ Wed, 22 Apr 2020 10:05:00: 34000000 INFO @ Wed, 22 Apr 2020 10:05:03: 28000000 INFO @ Wed, 22 Apr 2020 10:05:05: 35000000 INFO @ Wed, 22 Apr 2020 10:05:06: 11000000 INFO @ Wed, 22 Apr 2020 10:05:08: 29000000 INFO @ Wed, 22 Apr 2020 10:05:10: 36000000 INFO @ Wed, 22 Apr 2020 10:05:12: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:05:12: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:05:12: #1 total tags in treatment: 17876067 INFO @ Wed, 22 Apr 2020 10:05:12: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:05:12: #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 10:05:13: #1 tags after filtering in treatment: 11012917 INFO @ Wed, 22 Apr 2020 10:05:13: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Apr 2020 10:05:13: #1 finished! INFO @ Wed, 22 Apr 2020 10:05:13: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:05:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:05:13: 30000000 INFO @ Wed, 22 Apr 2020 10:05:13: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:05:13: 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 10:05:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.05_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/SRX7409551/SRX7409551.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:05:14: 12000000 INFO @ Wed, 22 Apr 2020 10:05:18: 31000000 INFO @ Wed, 22 Apr 2020 10:05:21: 13000000 INFO @ Wed, 22 Apr 2020 10:05:23: 32000000 INFO @ Wed, 22 Apr 2020 10:05:27: 14000000 INFO @ Wed, 22 Apr 2020 10:05:28: 33000000 INFO @ Wed, 22 Apr 2020 10:05:32: 34000000 INFO @ Wed, 22 Apr 2020 10:05:33: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:05:37: 35000000 INFO @ Wed, 22 Apr 2020 10:05:38: 16000000 INFO @ Wed, 22 Apr 2020 10:05:43: 36000000 INFO @ Wed, 22 Apr 2020 10:05:45: 17000000 INFO @ Wed, 22 Apr 2020 10:05:45: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:05:45: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:05:45: #1 total tags in treatment: 17876067 INFO @ Wed, 22 Apr 2020 10:05:45: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:05:45: #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 10:05:46: #1 tags after filtering in treatment: 11012917 INFO @ Wed, 22 Apr 2020 10:05:46: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Apr 2020 10:05:46: #1 finished! INFO @ Wed, 22 Apr 2020 10:05:46: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:05:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:05:46: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:05:46: 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 10:05:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.10_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/SRX7409551/SRX7409551.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:05:50: 18000000 INFO @ Wed, 22 Apr 2020 10:05:55: 19000000 INFO @ Wed, 22 Apr 2020 10:06:01: 20000000 INFO @ Wed, 22 Apr 2020 10:06:06: 21000000 INFO @ Wed, 22 Apr 2020 10:06:15: 22000000 INFO @ Wed, 22 Apr 2020 10:06:24: 23000000 INFO @ Wed, 22 Apr 2020 10:06:31: 24000000 INFO @ Wed, 22 Apr 2020 10:06:37: 25000000 INFO @ Wed, 22 Apr 2020 10:06:43: 26000000 INFO @ Wed, 22 Apr 2020 10:06:49: 27000000 INFO @ Wed, 22 Apr 2020 10:06:54: 28000000 INFO @ Wed, 22 Apr 2020 10:07:00: 29000000 INFO @ Wed, 22 Apr 2020 10:07:06: 30000000 INFO @ Wed, 22 Apr 2020 10:07:11: 31000000 INFO @ Wed, 22 Apr 2020 10:07:17: 32000000 INFO @ Wed, 22 Apr 2020 10:07:22: 33000000 INFO @ Wed, 22 Apr 2020 10:07:27: 34000000 INFO @ Wed, 22 Apr 2020 10:07:33: 35000000 INFO @ Wed, 22 Apr 2020 10:07:38: 36000000 INFO @ Wed, 22 Apr 2020 10:07:40: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:07:40: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:07:40: #1 total tags in treatment: 17876067 INFO @ Wed, 22 Apr 2020 10:07:40: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:07:40: #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 10:07:40: #1 tags after filtering in treatment: 11012917 INFO @ Wed, 22 Apr 2020 10:07:40: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Apr 2020 10:07:40: #1 finished! INFO @ Wed, 22 Apr 2020 10:07:40: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:07:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:07:41: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:07:41: 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 Apr 2020 10:07:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409551/SRX7409551.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling