Job ID = 6527498 SRX = SRX033321 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:43:00 prefetch.2.10.7: 1) Downloading 'SRR080716'... 2020-06-29T12:43:00 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:44:57 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:44:58 prefetch.2.10.7: 'SRR080716' is valid 2020-06-29T12:44:58 prefetch.2.10.7: 1) 'SRR080716' was downloaded successfully Read 22894550 spots for SRR080716/SRR080716.sra Written 22894550 spots for SRR080716/SRR080716.sra 2020-06-29T12:46:27 prefetch.2.10.7: 1) Downloading 'SRR080717'... 2020-06-29T12:46:27 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:48:26 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:48:27 prefetch.2.10.7: 'SRR080717' is valid 2020-06-29T12:48:27 prefetch.2.10.7: 1) 'SRR080717' was downloaded successfully Read 20673618 spots for SRR080717/SRR080717.sra Written 20673618 spots for SRR080717/SRR080717.sra 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: 00:09:57 43568168 reads; of these: 43568168 (100.00%) were unpaired; of these: 1330261 (3.05%) aligned 0 times 35627932 (81.78%) aligned exactly 1 time 6609975 (15.17%) aligned >1 times 96.95% overall alignment rate Time searching: 00:09:57 Overall time: 00:09:57 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 19210630 / 42237907 = 0.4548 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 @ Mon, 29 Jun 2020 22:19:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:19:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:19:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:19:12: 1000000 INFO @ Mon, 29 Jun 2020 22:19:19: 2000000 INFO @ Mon, 29 Jun 2020 22:19:25: 3000000 INFO @ Mon, 29 Jun 2020 22:19:32: 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 @ Mon, 29 Jun 2020 22:19:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:19:35: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:19:35: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:19:39: 5000000 INFO @ Mon, 29 Jun 2020 22:19:43: 1000000 INFO @ Mon, 29 Jun 2020 22:19:46: 6000000 INFO @ Mon, 29 Jun 2020 22:19:50: 2000000 INFO @ Mon, 29 Jun 2020 22:19:53: 7000000 INFO @ Mon, 29 Jun 2020 22:19:57: 3000000 INFO @ Mon, 29 Jun 2020 22:20:00: 8000000 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 @ Mon, 29 Jun 2020 22:20:04: 4000000 INFO @ Mon, 29 Jun 2020 22:20:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:20:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:20:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:20:06: 9000000 INFO @ Mon, 29 Jun 2020 22:20:11: 5000000 INFO @ Mon, 29 Jun 2020 22:20:13: 1000000 INFO @ Mon, 29 Jun 2020 22:20:14: 10000000 INFO @ Mon, 29 Jun 2020 22:20:18: 6000000 INFO @ Mon, 29 Jun 2020 22:20:21: 2000000 INFO @ Mon, 29 Jun 2020 22:20:22: 11000000 INFO @ Mon, 29 Jun 2020 22:20:25: 7000000 INFO @ Mon, 29 Jun 2020 22:20:28: 3000000 INFO @ Mon, 29 Jun 2020 22:20:29: 12000000 INFO @ Mon, 29 Jun 2020 22:20:31: 8000000 INFO @ Mon, 29 Jun 2020 22:20:36: 4000000 INFO @ Mon, 29 Jun 2020 22:20:36: 13000000 INFO @ Mon, 29 Jun 2020 22:20:38: 9000000 INFO @ Mon, 29 Jun 2020 22:20:43: 5000000 INFO @ Mon, 29 Jun 2020 22:20:44: 14000000 INFO @ Mon, 29 Jun 2020 22:20:45: 10000000 INFO @ Mon, 29 Jun 2020 22:20:51: 6000000 INFO @ Mon, 29 Jun 2020 22:20:51: 15000000 INFO @ Mon, 29 Jun 2020 22:20:52: 11000000 INFO @ Mon, 29 Jun 2020 22:20:59: 7000000 INFO @ Mon, 29 Jun 2020 22:20:59: 16000000 INFO @ Mon, 29 Jun 2020 22:21:00: 12000000 INFO @ Mon, 29 Jun 2020 22:21:06: 8000000 INFO @ Mon, 29 Jun 2020 22:21:06: 17000000 INFO @ Mon, 29 Jun 2020 22:21:07: 13000000 INFO @ Mon, 29 Jun 2020 22:21:14: 9000000 INFO @ Mon, 29 Jun 2020 22:21:14: 14000000 INFO @ Mon, 29 Jun 2020 22:21:14: 18000000 INFO @ Mon, 29 Jun 2020 22:21:20: 15000000 INFO @ Mon, 29 Jun 2020 22:21:21: 10000000 INFO @ Mon, 29 Jun 2020 22:21:21: 19000000 INFO @ Mon, 29 Jun 2020 22:21:27: 16000000 INFO @ Mon, 29 Jun 2020 22:21:29: 11000000 INFO @ Mon, 29 Jun 2020 22:21:29: 20000000 INFO @ Mon, 29 Jun 2020 22:21:34: 17000000 INFO @ Mon, 29 Jun 2020 22:21:36: 12000000 INFO @ Mon, 29 Jun 2020 22:21:36: 21000000 INFO @ Mon, 29 Jun 2020 22:21:41: 18000000 INFO @ Mon, 29 Jun 2020 22:21:43: 13000000 INFO @ Mon, 29 Jun 2020 22:21:44: 22000000 INFO @ Mon, 29 Jun 2020 22:21:47: 19000000 INFO @ Mon, 29 Jun 2020 22:21:51: 14000000 INFO @ Mon, 29 Jun 2020 22:21:52: 23000000 INFO @ Mon, 29 Jun 2020 22:21:52: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:21:52: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:21:52: #1 total tags in treatment: 23027277 INFO @ Mon, 29 Jun 2020 22:21:52: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:21:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:21:52: #1 tags after filtering in treatment: 23027277 INFO @ Mon, 29 Jun 2020 22:21:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:21:52: #1 finished! INFO @ Mon, 29 Jun 2020 22:21:52: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:21:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:21:54: #2 number of paired peaks: 51 WARNING @ Mon, 29 Jun 2020 22:21:54: Too few paired peaks (51) 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 @ Mon, 29 Jun 2020 22:21:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.05_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/dm3/SRX033321/SRX033321.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:21:54: 20000000 INFO @ Mon, 29 Jun 2020 22:21:58: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:22:01: 21000000 INFO @ Mon, 29 Jun 2020 22:22:05: 16000000 INFO @ Mon, 29 Jun 2020 22:22:07: 22000000 INFO @ Mon, 29 Jun 2020 22:22:11: 17000000 INFO @ Mon, 29 Jun 2020 22:22:14: 23000000 INFO @ Mon, 29 Jun 2020 22:22:15: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:22:15: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:22:15: #1 total tags in treatment: 23027277 INFO @ Mon, 29 Jun 2020 22:22:15: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:22:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:22:15: #1 tags after filtering in treatment: 23027277 INFO @ Mon, 29 Jun 2020 22:22:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:22:15: #1 finished! INFO @ Mon, 29 Jun 2020 22:22:15: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:22:15: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:22:16: #2 number of paired peaks: 51 WARNING @ Mon, 29 Jun 2020 22:22:16: Too few paired peaks (51) 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 @ Mon, 29 Jun 2020 22:22:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.10_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/dm3/SRX033321/SRX033321.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:22:18: 18000000 INFO @ Mon, 29 Jun 2020 22:22:25: 19000000 INFO @ Mon, 29 Jun 2020 22:22:32: 20000000 INFO @ Mon, 29 Jun 2020 22:22:39: 21000000 INFO @ Mon, 29 Jun 2020 22:22:45: 22000000 INFO @ Mon, 29 Jun 2020 22:22:52: 23000000 INFO @ Mon, 29 Jun 2020 22:22:52: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:22:52: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:22:52: #1 total tags in treatment: 23027277 INFO @ Mon, 29 Jun 2020 22:22:52: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:22:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:22:53: #1 tags after filtering in treatment: 23027277 INFO @ Mon, 29 Jun 2020 22:22:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:22:53: #1 finished! INFO @ Mon, 29 Jun 2020 22:22:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:22:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:22:54: #2 number of paired peaks: 51 WARNING @ Mon, 29 Jun 2020 22:22:54: Too few paired peaks (51) 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 @ Mon, 29 Jun 2020 22:22:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.20_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/dm3/SRX033321/SRX033321.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033321/SRX033321.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。