Job ID = 5791647 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 23,877,740 reads read : 47,755,480 reads written : 47,755,480 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: 00:12:18 23877740 reads; of these: 23877740 (100.00%) were paired; of these: 892212 (3.74%) aligned concordantly 0 times 20652377 (86.49%) aligned concordantly exactly 1 time 2333151 (9.77%) aligned concordantly >1 times ---- 892212 pairs aligned concordantly 0 times; of these: 23474 (2.63%) aligned discordantly 1 time ---- 868738 pairs aligned 0 times concordantly or discordantly; of these: 1737476 mates make up the pairs; of these: 1455237 (83.76%) aligned 0 times 243121 (13.99%) aligned exactly 1 time 39118 (2.25%) aligned >1 times 96.95% overall alignment rate Time searching: 00:12:18 Overall time: 00:12:18 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 20 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] 4242519 / 22991773 = 0.1845 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 10:36:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.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 10:36:00: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:36:00: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:36:04: 1000000 INFO @ Wed, 22 Apr 2020 10:36:08: 2000000 INFO @ Wed, 22 Apr 2020 10:36:12: 3000000 INFO @ Wed, 22 Apr 2020 10:36:16: 4000000 INFO @ Wed, 22 Apr 2020 10:36:20: 5000000 INFO @ Wed, 22 Apr 2020 10:36:24: 6000000 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 10:36:28: 7000000 INFO @ Wed, 22 Apr 2020 10:36:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.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 10:36:30: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:36:30: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:36:32: 8000000 INFO @ Wed, 22 Apr 2020 10:36:36: 9000000 INFO @ Wed, 22 Apr 2020 10:36:37: 1000000 INFO @ Wed, 22 Apr 2020 10:36:40: 10000000 INFO @ Wed, 22 Apr 2020 10:36:42: 2000000 INFO @ Wed, 22 Apr 2020 10:36:44: 11000000 INFO @ Wed, 22 Apr 2020 10:36:47: 3000000 INFO @ Wed, 22 Apr 2020 10:36:48: 12000000 INFO @ Wed, 22 Apr 2020 10:36:52: 4000000 INFO @ Wed, 22 Apr 2020 10:36:52: 13000000 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 10:36:56: 14000000 INFO @ Wed, 22 Apr 2020 10:36:57: 5000000 INFO @ Wed, 22 Apr 2020 10:37:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.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 10:37:00: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:37:00: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:37:00: 15000000 INFO @ Wed, 22 Apr 2020 10:37:02: 6000000 INFO @ Wed, 22 Apr 2020 10:37:04: 1000000 INFO @ Wed, 22 Apr 2020 10:37:04: 16000000 INFO @ Wed, 22 Apr 2020 10:37:07: 7000000 INFO @ Wed, 22 Apr 2020 10:37:08: 2000000 INFO @ Wed, 22 Apr 2020 10:37:08: 17000000 INFO @ Wed, 22 Apr 2020 10:37:12: 8000000 INFO @ Wed, 22 Apr 2020 10:37:12: 3000000 INFO @ Wed, 22 Apr 2020 10:37:13: 18000000 INFO @ Wed, 22 Apr 2020 10:37:16: 4000000 INFO @ Wed, 22 Apr 2020 10:37:17: 19000000 INFO @ Wed, 22 Apr 2020 10:37:17: 9000000 INFO @ Wed, 22 Apr 2020 10:37:20: 5000000 INFO @ Wed, 22 Apr 2020 10:37:21: 20000000 INFO @ Wed, 22 Apr 2020 10:37:21: 10000000 INFO @ Wed, 22 Apr 2020 10:37:24: 6000000 INFO @ Wed, 22 Apr 2020 10:37:25: 21000000 INFO @ Wed, 22 Apr 2020 10:37:26: 11000000 INFO @ Wed, 22 Apr 2020 10:37:28: 7000000 INFO @ Wed, 22 Apr 2020 10:37:29: 22000000 INFO @ Wed, 22 Apr 2020 10:37:31: 12000000 INFO @ Wed, 22 Apr 2020 10:37:32: 8000000 INFO @ Wed, 22 Apr 2020 10:37:33: 23000000 INFO @ Wed, 22 Apr 2020 10:37:36: 13000000 INFO @ Wed, 22 Apr 2020 10:37:36: 9000000 INFO @ Wed, 22 Apr 2020 10:37:37: 24000000 INFO @ Wed, 22 Apr 2020 10:37:40: 10000000 INFO @ Wed, 22 Apr 2020 10:37:41: 25000000 INFO @ Wed, 22 Apr 2020 10:37:41: 14000000 INFO @ Wed, 22 Apr 2020 10:37:44: 11000000 INFO @ Wed, 22 Apr 2020 10:37:45: 26000000 INFO @ Wed, 22 Apr 2020 10:37:46: 15000000 INFO @ Wed, 22 Apr 2020 10:37:48: 12000000 INFO @ Wed, 22 Apr 2020 10:37:49: 27000000 INFO @ Wed, 22 Apr 2020 10:37:51: 16000000 INFO @ Wed, 22 Apr 2020 10:37:53: 13000000 INFO @ Wed, 22 Apr 2020 10:37:53: 28000000 INFO @ Wed, 22 Apr 2020 10:37:56: 17000000 INFO @ Wed, 22 Apr 2020 10:37:57: 14000000 INFO @ Wed, 22 Apr 2020 10:37:57: 29000000 INFO @ Wed, 22 Apr 2020 10:38:00: 18000000 INFO @ Wed, 22 Apr 2020 10:38:01: 15000000 INFO @ Wed, 22 Apr 2020 10:38:01: 30000000 INFO @ Wed, 22 Apr 2020 10:38:05: 16000000 INFO @ Wed, 22 Apr 2020 10:38:05: 31000000 INFO @ Wed, 22 Apr 2020 10:38:05: 19000000 INFO @ Wed, 22 Apr 2020 10:38:09: 17000000 INFO @ Wed, 22 Apr 2020 10:38:09: 32000000 INFO @ Wed, 22 Apr 2020 10:38:10: 20000000 INFO @ Wed, 22 Apr 2020 10:38:13: 18000000 INFO @ Wed, 22 Apr 2020 10:38:13: 33000000 INFO @ Wed, 22 Apr 2020 10:38:15: 21000000 INFO @ Wed, 22 Apr 2020 10:38:17: 34000000 INFO @ Wed, 22 Apr 2020 10:38:17: 19000000 INFO @ Wed, 22 Apr 2020 10:38:20: 22000000 INFO @ Wed, 22 Apr 2020 10:38:21: 35000000 INFO @ Wed, 22 Apr 2020 10:38:21: 20000000 INFO @ Wed, 22 Apr 2020 10:38:25: 23000000 INFO @ Wed, 22 Apr 2020 10:38:25: 36000000 INFO @ Wed, 22 Apr 2020 10:38:25: 21000000 INFO @ Wed, 22 Apr 2020 10:38:29: 37000000 INFO @ Wed, 22 Apr 2020 10:38:29: 22000000 INFO @ Wed, 22 Apr 2020 10:38:29: 24000000 INFO @ Wed, 22 Apr 2020 10:38:33: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:38:33: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:38:33: #1 total tags in treatment: 18744077 INFO @ Wed, 22 Apr 2020 10:38:33: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:38:33: #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 10:38:33: #1 tags after filtering in treatment: 10778391 INFO @ Wed, 22 Apr 2020 10:38:33: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Apr 2020 10:38:33: #1 finished! INFO @ Wed, 22 Apr 2020 10:38:33: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:38:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:38:33: 23000000 INFO @ Wed, 22 Apr 2020 10:38:34: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:38:34: 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 10:38:34: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 10:38:34: 25000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.05_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/SRX7409611/SRX7409611.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:38:37: 24000000 INFO @ Wed, 22 Apr 2020 10:38:39: 26000000 INFO @ Wed, 22 Apr 2020 10:38:43: 25000000 INFO @ Wed, 22 Apr 2020 10:38:44: 27000000 INFO @ Wed, 22 Apr 2020 10:38:47: 26000000 INFO @ Wed, 22 Apr 2020 10:38:49: 28000000 INFO @ Wed, 22 Apr 2020 10:38:51: 27000000 INFO @ Wed, 22 Apr 2020 10:38:54: 29000000 INFO @ Wed, 22 Apr 2020 10:38:55: 28000000 INFO @ Wed, 22 Apr 2020 10:38:59: 30000000 INFO @ Wed, 22 Apr 2020 10:38:59: 29000000 INFO @ Wed, 22 Apr 2020 10:39:03: 30000000 INFO @ Wed, 22 Apr 2020 10:39:04: 31000000 INFO @ Wed, 22 Apr 2020 10:39:07: 31000000 INFO @ Wed, 22 Apr 2020 10:39:09: 32000000 INFO @ Wed, 22 Apr 2020 10:39:12: 32000000 INFO @ Wed, 22 Apr 2020 10:39:13: 33000000 INFO @ Wed, 22 Apr 2020 10:39:16: 33000000 INFO @ Wed, 22 Apr 2020 10:39:18: 34000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:39:20: 34000000 INFO @ Wed, 22 Apr 2020 10:39:23: 35000000 INFO @ Wed, 22 Apr 2020 10:39:25: 35000000 INFO @ Wed, 22 Apr 2020 10:39:28: 36000000 INFO @ Wed, 22 Apr 2020 10:39:30: 36000000 INFO @ Wed, 22 Apr 2020 10:39:32: 37000000 INFO @ Wed, 22 Apr 2020 10:39:34: 37000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:39:36: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:39:36: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:39:36: #1 total tags in treatment: 18744077 INFO @ Wed, 22 Apr 2020 10:39:36: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:39:36: #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 10:39:37: #1 tags after filtering in treatment: 10778391 INFO @ Wed, 22 Apr 2020 10:39:37: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Apr 2020 10:39:37: #1 finished! INFO @ Wed, 22 Apr 2020 10:39:37: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:39:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:39:37: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:39:37: 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 10:39:37: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 10:39:38: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:39:38: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:39:38: #1 total tags in treatment: 18744077 INFO @ Wed, 22 Apr 2020 10:39:38: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:39:38: #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 10:39:38: #1 tags after filtering in treatment: 10778391 INFO @ Wed, 22 Apr 2020 10:39:38: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Apr 2020 10:39:38: #1 finished! INFO @ Wed, 22 Apr 2020 10:39:38: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:39:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:39:39: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:39:39: 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 10:39:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.10_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/SRX7409611/SRX7409611.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.20_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/SRX7409611/SRX7409611.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409611/SRX7409611.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling