Job ID = 6527751 SRX = SRX2618508 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:35:10 prefetch.2.10.7: 1) Downloading 'SRR5319062'... 2020-06-29T13:35:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:36:50 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:36:52 prefetch.2.10.7: 'SRR5319062' is valid 2020-06-29T13:36:52 prefetch.2.10.7: 1) 'SRR5319062' was downloaded successfully 2020-06-29T13:36:52 prefetch.2.10.7: 'SRR5319062' has 0 unresolved dependencies Read 24192906 spots for SRR5319062/SRR5319062.sra Written 24192906 spots for SRR5319062/SRR5319062.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: 00:06:08 24192906 reads; of these: 24192906 (100.00%) were unpaired; of these: 6120478 (25.30%) aligned 0 times 14819341 (61.25%) aligned exactly 1 time 3253087 (13.45%) aligned >1 times 74.70% overall alignment rate Time searching: 00:06:09 Overall time: 00:06:09 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 8 files... [bam_rmdupse_core] 1842783 / 18072428 = 0.1020 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 22:57:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.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 22:57:28: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:57:28: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:57:34: 1000000 INFO @ Mon, 29 Jun 2020 22:57:40: 2000000 INFO @ Mon, 29 Jun 2020 22:57:46: 3000000 INFO @ Mon, 29 Jun 2020 22:57:52: 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 22:57:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.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 22:57:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:57:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:57:58: 5000000 INFO @ Mon, 29 Jun 2020 22:58:04: 1000000 INFO @ Mon, 29 Jun 2020 22:58:04: 6000000 INFO @ Mon, 29 Jun 2020 22:58:10: 2000000 INFO @ Mon, 29 Jun 2020 22:58:11: 7000000 INFO @ Mon, 29 Jun 2020 22:58:17: 3000000 INFO @ Mon, 29 Jun 2020 22:58:17: 8000000 INFO @ Mon, 29 Jun 2020 22:58:23: 4000000 INFO @ Mon, 29 Jun 2020 22:58:24: 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 @ Mon, 29 Jun 2020 22:58:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.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 22:58:28: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:58:28: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:58:29: 5000000 INFO @ Mon, 29 Jun 2020 22:58:30: 10000000 INFO @ Mon, 29 Jun 2020 22:58:34: 1000000 INFO @ Mon, 29 Jun 2020 22:58:36: 6000000 INFO @ Mon, 29 Jun 2020 22:58:37: 11000000 INFO @ Mon, 29 Jun 2020 22:58:41: 2000000 INFO @ Mon, 29 Jun 2020 22:58:43: 7000000 INFO @ Mon, 29 Jun 2020 22:58:43: 12000000 INFO @ Mon, 29 Jun 2020 22:58:47: 3000000 INFO @ Mon, 29 Jun 2020 22:58:49: 8000000 INFO @ Mon, 29 Jun 2020 22:58:50: 13000000 INFO @ Mon, 29 Jun 2020 22:58:54: 4000000 INFO @ Mon, 29 Jun 2020 22:58:55: 9000000 INFO @ Mon, 29 Jun 2020 22:58:56: 14000000 INFO @ Mon, 29 Jun 2020 22:59:00: 5000000 INFO @ Mon, 29 Jun 2020 22:59:02: 10000000 INFO @ Mon, 29 Jun 2020 22:59:03: 15000000 INFO @ Mon, 29 Jun 2020 22:59:07: 6000000 INFO @ Mon, 29 Jun 2020 22:59:09: 11000000 INFO @ Mon, 29 Jun 2020 22:59:09: 16000000 INFO @ Mon, 29 Jun 2020 22:59:11: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:59:11: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:59:11: #1 total tags in treatment: 16229645 INFO @ Mon, 29 Jun 2020 22:59:11: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:59:11: #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 22:59:11: #1 tags after filtering in treatment: 16229645 INFO @ Mon, 29 Jun 2020 22:59:11: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:59:11: #1 finished! INFO @ Mon, 29 Jun 2020 22:59:11: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:59:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:59:13: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 22:59:13: Too few paired peaks (41) 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 22:59:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.05_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/SRX2618508/SRX2618508.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:59:13: 7000000 INFO @ Mon, 29 Jun 2020 22:59:15: 12000000 INFO @ Mon, 29 Jun 2020 22:59:19: 8000000 INFO @ Mon, 29 Jun 2020 22:59:21: 13000000 INFO @ Mon, 29 Jun 2020 22:59:26: 9000000 INFO @ Mon, 29 Jun 2020 22:59:27: 14000000 INFO @ Mon, 29 Jun 2020 22:59:32: 10000000 INFO @ Mon, 29 Jun 2020 22:59:34: 15000000 INFO @ Mon, 29 Jun 2020 22:59:38: 11000000 INFO @ Mon, 29 Jun 2020 22:59:40: 16000000 INFO @ Mon, 29 Jun 2020 22:59:41: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:59:41: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:59:41: #1 total tags in treatment: 16229645 INFO @ Mon, 29 Jun 2020 22:59:41: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:59:41: #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 22:59:42: #1 tags after filtering in treatment: 16229645 INFO @ Mon, 29 Jun 2020 22:59:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:59:42: #1 finished! INFO @ Mon, 29 Jun 2020 22:59:42: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:59:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:59:43: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 22:59:43: Too few paired peaks (41) 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 22:59:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.10_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/SRX2618508/SRX2618508.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:59:44: 12000000 INFO @ Mon, 29 Jun 2020 22:59:51: 13000000 INFO @ Mon, 29 Jun 2020 22:59:57: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:00:03: 15000000 INFO @ Mon, 29 Jun 2020 23:00:09: 16000000 INFO @ Mon, 29 Jun 2020 23:00:11: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:00:11: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:00:11: #1 total tags in treatment: 16229645 INFO @ Mon, 29 Jun 2020 23:00:11: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:00:11: #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 23:00:11: #1 tags after filtering in treatment: 16229645 INFO @ Mon, 29 Jun 2020 23:00:11: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:00:11: #1 finished! INFO @ Mon, 29 Jun 2020 23:00:11: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:00:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:00:12: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 23:00:12: Too few paired peaks (41) 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 23:00:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.20_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/dm3/SRX2618508/SRX2618508.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618508/SRX2618508.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。