Job ID = 5791117 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 18,481,946 reads read : 36,963,892 reads written : 36,963,892 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: 00:09:39 18481946 reads; of these: 18481946 (100.00%) were paired; of these: 2215045 (11.98%) aligned concordantly 0 times 13871837 (75.06%) aligned concordantly exactly 1 time 2395064 (12.96%) aligned concordantly >1 times ---- 2215045 pairs aligned concordantly 0 times; of these: 570395 (25.75%) aligned discordantly 1 time ---- 1644650 pairs aligned 0 times concordantly or discordantly; of these: 3289300 mates make up the pairs; of these: 2525230 (76.77%) aligned 0 times 376160 (11.44%) aligned exactly 1 time 387910 (11.79%) aligned >1 times 93.17% overall alignment rate Time searching: 00:09:39 Overall time: 00:09:39 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] 1969303 / 16812961 = 0.1171 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 09:02:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.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 09:02:21: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:02:21: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:02:27: 1000000 INFO @ Wed, 22 Apr 2020 09:02:33: 2000000 INFO @ Wed, 22 Apr 2020 09:02:38: 3000000 INFO @ Wed, 22 Apr 2020 09:02:44: 4000000 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 09:02:50: 5000000 INFO @ Wed, 22 Apr 2020 09:02:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.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 09:02:51: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:02:51: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:02:57: 6000000 INFO @ Wed, 22 Apr 2020 09:02:59: 1000000 INFO @ Wed, 22 Apr 2020 09:03:04: 7000000 INFO @ Wed, 22 Apr 2020 09:03:06: 2000000 INFO @ Wed, 22 Apr 2020 09:03:11: 8000000 INFO @ Wed, 22 Apr 2020 09:03:14: 3000000 INFO @ Wed, 22 Apr 2020 09:03:18: 9000000 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 09:03:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.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 09:03:21: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:03:21: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:03:21: 4000000 INFO @ Wed, 22 Apr 2020 09:03:25: 10000000 INFO @ Wed, 22 Apr 2020 09:03:29: 1000000 INFO @ Wed, 22 Apr 2020 09:03:29: 5000000 INFO @ Wed, 22 Apr 2020 09:03:33: 11000000 INFO @ Wed, 22 Apr 2020 09:03:36: 2000000 INFO @ Wed, 22 Apr 2020 09:03:37: 6000000 INFO @ Wed, 22 Apr 2020 09:03:41: 12000000 INFO @ Wed, 22 Apr 2020 09:03:44: 3000000 INFO @ Wed, 22 Apr 2020 09:03:44: 7000000 INFO @ Wed, 22 Apr 2020 09:03:48: 13000000 INFO @ Wed, 22 Apr 2020 09:03:51: 4000000 INFO @ Wed, 22 Apr 2020 09:03:52: 8000000 INFO @ Wed, 22 Apr 2020 09:03:56: 14000000 INFO @ Wed, 22 Apr 2020 09:03:59: 5000000 INFO @ Wed, 22 Apr 2020 09:03:59: 9000000 INFO @ Wed, 22 Apr 2020 09:04:03: 15000000 INFO @ Wed, 22 Apr 2020 09:04:06: 6000000 INFO @ Wed, 22 Apr 2020 09:04:07: 10000000 INFO @ Wed, 22 Apr 2020 09:04:11: 16000000 INFO @ Wed, 22 Apr 2020 09:04:14: 7000000 INFO @ Wed, 22 Apr 2020 09:04:14: 11000000 INFO @ Wed, 22 Apr 2020 09:04:18: 17000000 INFO @ Wed, 22 Apr 2020 09:04:22: 8000000 INFO @ Wed, 22 Apr 2020 09:04:22: 12000000 INFO @ Wed, 22 Apr 2020 09:04:26: 18000000 INFO @ Wed, 22 Apr 2020 09:04:29: 9000000 INFO @ Wed, 22 Apr 2020 09:04:29: 13000000 INFO @ Wed, 22 Apr 2020 09:04:33: 19000000 INFO @ Wed, 22 Apr 2020 09:04:36: 10000000 INFO @ Wed, 22 Apr 2020 09:04:37: 14000000 INFO @ Wed, 22 Apr 2020 09:04:41: 20000000 INFO @ Wed, 22 Apr 2020 09:04:44: 11000000 INFO @ Wed, 22 Apr 2020 09:04:45: 15000000 INFO @ Wed, 22 Apr 2020 09:04:48: 21000000 INFO @ Wed, 22 Apr 2020 09:04:51: 12000000 INFO @ Wed, 22 Apr 2020 09:04:52: 16000000 INFO @ Wed, 22 Apr 2020 09:04:56: 22000000 INFO @ Wed, 22 Apr 2020 09:04:59: 13000000 INFO @ Wed, 22 Apr 2020 09:05:00: 17000000 INFO @ Wed, 22 Apr 2020 09:05:04: 23000000 INFO @ Wed, 22 Apr 2020 09:05:06: 14000000 INFO @ Wed, 22 Apr 2020 09:05:08: 18000000 INFO @ Wed, 22 Apr 2020 09:05:11: 24000000 INFO @ Wed, 22 Apr 2020 09:05:14: 15000000 INFO @ Wed, 22 Apr 2020 09:05:15: 19000000 INFO @ Wed, 22 Apr 2020 09:05:19: 25000000 INFO @ Wed, 22 Apr 2020 09:05:21: 16000000 INFO @ Wed, 22 Apr 2020 09:05:23: 20000000 INFO @ Wed, 22 Apr 2020 09:05:26: 26000000 INFO @ Wed, 22 Apr 2020 09:05:29: 17000000 INFO @ Wed, 22 Apr 2020 09:05:30: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 09:05:33: 27000000 INFO @ Wed, 22 Apr 2020 09:05:36: 18000000 INFO @ Wed, 22 Apr 2020 09:05:38: 22000000 INFO @ Wed, 22 Apr 2020 09:05:41: 28000000 INFO @ Wed, 22 Apr 2020 09:05:44: 19000000 INFO @ Wed, 22 Apr 2020 09:05:46: 23000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 09:05:48: 29000000 INFO @ Wed, 22 Apr 2020 09:05:51: 20000000 INFO @ Wed, 22 Apr 2020 09:05:53: 24000000 INFO @ Wed, 22 Apr 2020 09:05:55: 30000000 INFO @ Wed, 22 Apr 2020 09:05:58: 21000000 INFO @ Wed, 22 Apr 2020 09:05:59: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:05:59: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:05:59: #1 total tags in treatment: 14325519 INFO @ Wed, 22 Apr 2020 09:05:59: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:05:59: #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 09:05:59: #1 tags after filtering in treatment: 9648107 INFO @ Wed, 22 Apr 2020 09:05:59: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Apr 2020 09:05:59: #1 finished! INFO @ Wed, 22 Apr 2020 09:05:59: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:05:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:06:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:06:00: 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 09:06:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.05_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/SRX6078428/SRX6078428.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:06:01: 25000000 INFO @ Wed, 22 Apr 2020 09:06:05: 22000000 INFO @ Wed, 22 Apr 2020 09:06:09: 26000000 INFO @ Wed, 22 Apr 2020 09:06:13: 23000000 INFO @ Wed, 22 Apr 2020 09:06:16: 27000000 INFO @ Wed, 22 Apr 2020 09:06:20: 24000000 INFO @ Wed, 22 Apr 2020 09:06:24: 28000000 INFO @ Wed, 22 Apr 2020 09:06:27: 25000000 INFO @ Wed, 22 Apr 2020 09:06:31: 29000000 INFO @ Wed, 22 Apr 2020 09:06:34: 26000000 INFO @ Wed, 22 Apr 2020 09:06:39: 30000000 INFO @ Wed, 22 Apr 2020 09:06:41: 27000000 INFO @ Wed, 22 Apr 2020 09:06:42: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:06:42: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:06:42: #1 total tags in treatment: 14325519 INFO @ Wed, 22 Apr 2020 09:06:42: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:06:42: #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 09:06:43: #1 tags after filtering in treatment: 9648107 INFO @ Wed, 22 Apr 2020 09:06:43: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Apr 2020 09:06:43: #1 finished! INFO @ Wed, 22 Apr 2020 09:06:43: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:06:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:06:43: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:06:43: 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 09:06:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.10_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/SRX6078428/SRX6078428.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:06:47: 28000000 INFO @ Wed, 22 Apr 2020 09:06:54: 29000000 INFO @ Wed, 22 Apr 2020 09:07:00: 30000000 INFO @ Wed, 22 Apr 2020 09:07:03: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:07:03: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:07:03: #1 total tags in treatment: 14325519 INFO @ Wed, 22 Apr 2020 09:07:03: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:07:03: #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 09:07:03: #1 tags after filtering in treatment: 9648107 INFO @ Wed, 22 Apr 2020 09:07:03: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Apr 2020 09:07:03: #1 finished! INFO @ Wed, 22 Apr 2020 09:07:03: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:07:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:07:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:07:04: 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 09:07:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.20_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/SRX6078428/SRX6078428.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078428/SRX6078428.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling