Job ID = 5791120 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 11,140,859 reads read : 22,281,718 reads written : 22,281,718 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: 00:05:26 11140859 reads; of these: 11140859 (100.00%) were paired; of these: 1275142 (11.45%) aligned concordantly 0 times 8508384 (76.37%) aligned concordantly exactly 1 time 1357333 (12.18%) aligned concordantly >1 times ---- 1275142 pairs aligned concordantly 0 times; of these: 291694 (22.88%) aligned discordantly 1 time ---- 983448 pairs aligned 0 times concordantly or discordantly; of these: 1966896 mates make up the pairs; of these: 1517882 (77.17%) aligned 0 times 249017 (12.66%) aligned exactly 1 time 199997 (10.17%) aligned >1 times 93.19% overall alignment rate Time searching: 00:05:26 Overall time: 00:05:26 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 12 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] 500916 / 10153077 = 0.0493 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 08:49:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.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 08:49:29: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:49:29: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:49:34: 1000000 INFO @ Wed, 22 Apr 2020 08:49:40: 2000000 INFO @ Wed, 22 Apr 2020 08:49:45: 3000000 INFO @ Wed, 22 Apr 2020 08:49:51: 4000000 INFO @ Wed, 22 Apr 2020 08:49:56: 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 08:49:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.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 08:49:59: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:49:59: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:50:02: 6000000 INFO @ Wed, 22 Apr 2020 08:50:04: 1000000 INFO @ Wed, 22 Apr 2020 08:50:07: 7000000 INFO @ Wed, 22 Apr 2020 08:50:09: 2000000 INFO @ Wed, 22 Apr 2020 08:50:13: 8000000 INFO @ Wed, 22 Apr 2020 08:50:14: 3000000 INFO @ Wed, 22 Apr 2020 08:50:19: 4000000 INFO @ Wed, 22 Apr 2020 08:50:19: 9000000 INFO @ Wed, 22 Apr 2020 08:50:24: 5000000 INFO @ Wed, 22 Apr 2020 08:50:25: 10000000 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 08:50:29: 6000000 INFO @ Wed, 22 Apr 2020 08:50:30: 11000000 INFO @ Wed, 22 Apr 2020 08:50:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.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 08:50:31: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:50:31: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:50:33: 7000000 INFO @ Wed, 22 Apr 2020 08:50:36: 1000000 INFO @ Wed, 22 Apr 2020 08:50:36: 12000000 INFO @ Wed, 22 Apr 2020 08:50:38: 8000000 INFO @ Wed, 22 Apr 2020 08:50:41: 2000000 INFO @ Wed, 22 Apr 2020 08:50:42: 13000000 INFO @ Wed, 22 Apr 2020 08:50:43: 9000000 INFO @ Wed, 22 Apr 2020 08:50:46: 3000000 INFO @ Wed, 22 Apr 2020 08:50:48: 14000000 INFO @ Wed, 22 Apr 2020 08:50:48: 10000000 INFO @ Wed, 22 Apr 2020 08:50:51: 4000000 INFO @ Wed, 22 Apr 2020 08:50:53: 11000000 INFO @ Wed, 22 Apr 2020 08:50:53: 15000000 INFO @ Wed, 22 Apr 2020 08:50:56: 5000000 INFO @ Wed, 22 Apr 2020 08:50:58: 12000000 INFO @ Wed, 22 Apr 2020 08:50:59: 16000000 INFO @ Wed, 22 Apr 2020 08:51:00: 6000000 INFO @ Wed, 22 Apr 2020 08:51:03: 13000000 INFO @ Wed, 22 Apr 2020 08:51:05: 17000000 INFO @ Wed, 22 Apr 2020 08:51:05: 7000000 INFO @ Wed, 22 Apr 2020 08:51:08: 14000000 INFO @ Wed, 22 Apr 2020 08:51:10: 8000000 INFO @ Wed, 22 Apr 2020 08:51:11: 18000000 INFO @ Wed, 22 Apr 2020 08:51:13: 15000000 INFO @ Wed, 22 Apr 2020 08:51:15: 9000000 INFO @ Wed, 22 Apr 2020 08:51:17: 19000000 INFO @ Wed, 22 Apr 2020 08:51:18: 16000000 INFO @ Wed, 22 Apr 2020 08:51:20: 10000000 INFO @ Wed, 22 Apr 2020 08:51:21: #1 tag size is determined as 51 bps INFO @ Wed, 22 Apr 2020 08:51:21: #1 tag size = 51 INFO @ Wed, 22 Apr 2020 08:51:21: #1 total tags in treatment: 9369852 INFO @ Wed, 22 Apr 2020 08:51:21: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:51:21: #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 08:51:21: #1 tags after filtering in treatment: 6961394 INFO @ Wed, 22 Apr 2020 08:51:21: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 22 Apr 2020 08:51:21: #1 finished! INFO @ Wed, 22 Apr 2020 08:51:21: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:51:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:51:22: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 08:51:22: 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 08:51:22: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 08:51:23: 17000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.05_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/SRX6078431/SRX6078431.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:51:25: 11000000 INFO @ Wed, 22 Apr 2020 08:51:28: 18000000 INFO @ Wed, 22 Apr 2020 08:51:30: 12000000 INFO @ Wed, 22 Apr 2020 08:51:33: 19000000 INFO @ Wed, 22 Apr 2020 08:51:35: 13000000 INFO @ Wed, 22 Apr 2020 08:51:36: #1 tag size is determined as 51 bps INFO @ Wed, 22 Apr 2020 08:51:36: #1 tag size = 51 INFO @ Wed, 22 Apr 2020 08:51:36: #1 total tags in treatment: 9369852 INFO @ Wed, 22 Apr 2020 08:51:36: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:51:36: #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 08:51:36: #1 tags after filtering in treatment: 6961394 INFO @ Wed, 22 Apr 2020 08:51:36: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 22 Apr 2020 08:51:36: #1 finished! INFO @ Wed, 22 Apr 2020 08:51:36: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:51:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:51:37: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 08:51:37: 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 08:51:37: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 08:51:40: 14000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.10_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/SRX6078431/SRX6078431.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:51:44: 15000000 INFO @ Wed, 22 Apr 2020 08:51:49: 16000000 INFO @ Wed, 22 Apr 2020 08:51:54: 17000000 INFO @ Wed, 22 Apr 2020 08:51:58: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 08:52:03: 19000000 INFO @ Wed, 22 Apr 2020 08:52:07: #1 tag size is determined as 51 bps INFO @ Wed, 22 Apr 2020 08:52:07: #1 tag size = 51 INFO @ Wed, 22 Apr 2020 08:52:07: #1 total tags in treatment: 9369852 INFO @ Wed, 22 Apr 2020 08:52:07: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:52:07: #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 08:52:07: #1 tags after filtering in treatment: 6961394 INFO @ Wed, 22 Apr 2020 08:52:07: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 22 Apr 2020 08:52:07: #1 finished! INFO @ Wed, 22 Apr 2020 08:52:07: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:52:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:52:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 08:52:07: 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 08:52:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.20_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/SRX6078431/SRX6078431.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078431/SRX6078431.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。