Job ID = 6527605 SRX = SRX135528 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:27:19 prefetch.2.10.7: 1) Downloading 'SRR453253'... 2020-06-29T13:27:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:43:47 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:43:47 prefetch.2.10.7: 1) 'SRR453253' was downloaded successfully Read 103221084 spots for SRR453253/SRR453253.sra Written 103221084 spots for SRR453253/SRR453253.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: 00:17:09 103221084 reads; of these: 103221084 (100.00%) were unpaired; of these: 70878349 (68.67%) aligned 0 times 23829996 (23.09%) aligned exactly 1 time 8512739 (8.25%) aligned >1 times 31.33% overall alignment rate Time searching: 00:17:09 Overall time: 00:17:09 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 16 files... [bam_rmdupse_core] 16211217 / 32342735 = 0.5012 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 23:36:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.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 23:36:12: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:36:12: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:36:17: 1000000 INFO @ Mon, 29 Jun 2020 23:36:23: 2000000 INFO @ Mon, 29 Jun 2020 23:36:29: 3000000 INFO @ Mon, 29 Jun 2020 23:36:35: 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 23:36:40: 5000000 INFO @ Mon, 29 Jun 2020 23:36:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.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 23:36:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:36:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:36:47: 6000000 INFO @ Mon, 29 Jun 2020 23:36:48: 1000000 INFO @ Mon, 29 Jun 2020 23:36:53: 7000000 INFO @ Mon, 29 Jun 2020 23:36:54: 2000000 INFO @ Mon, 29 Jun 2020 23:36:59: 8000000 INFO @ Mon, 29 Jun 2020 23:37:00: 3000000 INFO @ Mon, 29 Jun 2020 23:37:05: 9000000 INFO @ Mon, 29 Jun 2020 23:37:06: 4000000 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 23:37:11: 10000000 INFO @ Mon, 29 Jun 2020 23:37:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.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 23:37:12: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:37:12: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:37:12: 5000000 INFO @ Mon, 29 Jun 2020 23:37:18: 11000000 INFO @ Mon, 29 Jun 2020 23:37:19: 1000000 INFO @ Mon, 29 Jun 2020 23:37:19: 6000000 INFO @ Mon, 29 Jun 2020 23:37:25: 12000000 INFO @ Mon, 29 Jun 2020 23:37:26: 7000000 INFO @ Mon, 29 Jun 2020 23:37:26: 2000000 INFO @ Mon, 29 Jun 2020 23:37:32: 13000000 INFO @ Mon, 29 Jun 2020 23:37:32: 8000000 INFO @ Mon, 29 Jun 2020 23:37:34: 3000000 INFO @ Mon, 29 Jun 2020 23:37:38: 14000000 INFO @ Mon, 29 Jun 2020 23:37:39: 9000000 INFO @ Mon, 29 Jun 2020 23:37:41: 4000000 INFO @ Mon, 29 Jun 2020 23:37:45: 15000000 INFO @ Mon, 29 Jun 2020 23:37:46: 10000000 INFO @ Mon, 29 Jun 2020 23:37:49: 5000000 INFO @ Mon, 29 Jun 2020 23:37:52: 16000000 INFO @ Mon, 29 Jun 2020 23:37:52: 11000000 INFO @ Mon, 29 Jun 2020 23:37:53: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:37:53: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:37:53: #1 total tags in treatment: 16131518 INFO @ Mon, 29 Jun 2020 23:37:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:37:53: #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 23:37:53: #1 tags after filtering in treatment: 16131518 INFO @ Mon, 29 Jun 2020 23:37:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:37:53: #1 finished! INFO @ Mon, 29 Jun 2020 23:37:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:37:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:37:54: #2 number of paired peaks: 10 WARNING @ Mon, 29 Jun 2020 23:37:54: Too few paired peaks (10) 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 23:37:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.05_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/dm3/SRX135528/SRX135528.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:37:56: 6000000 INFO @ Mon, 29 Jun 2020 23:37:59: 12000000 INFO @ Mon, 29 Jun 2020 23:38:03: 7000000 INFO @ Mon, 29 Jun 2020 23:38:05: 13000000 INFO @ Mon, 29 Jun 2020 23:38:11: 8000000 INFO @ Mon, 29 Jun 2020 23:38:12: 14000000 INFO @ Mon, 29 Jun 2020 23:38:18: 9000000 INFO @ Mon, 29 Jun 2020 23:38:19: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:38:25: 16000000 INFO @ Mon, 29 Jun 2020 23:38:26: 10000000 INFO @ Mon, 29 Jun 2020 23:38:26: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:38:26: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:38:26: #1 total tags in treatment: 16131518 INFO @ Mon, 29 Jun 2020 23:38:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:38:26: #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 23:38:27: #1 tags after filtering in treatment: 16131518 INFO @ Mon, 29 Jun 2020 23:38:27: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:38:27: #1 finished! INFO @ Mon, 29 Jun 2020 23:38:27: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:38:27: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:38:28: #2 number of paired peaks: 10 WARNING @ Mon, 29 Jun 2020 23:38:28: Too few paired peaks (10) 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 23:38:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.10_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/SRX135528/SRX135528.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:38:33: 11000000 INFO @ Mon, 29 Jun 2020 23:38:40: 12000000 INFO @ Mon, 29 Jun 2020 23:38:47: 13000000 INFO @ Mon, 29 Jun 2020 23:38:54: 14000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:39:01: 15000000 INFO @ Mon, 29 Jun 2020 23:39:09: 16000000 INFO @ Mon, 29 Jun 2020 23:39:09: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:39:09: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:39:09: #1 total tags in treatment: 16131518 INFO @ Mon, 29 Jun 2020 23:39:09: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:39:09: #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 23:39:10: #1 tags after filtering in treatment: 16131518 INFO @ Mon, 29 Jun 2020 23:39:10: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:39:10: #1 finished! INFO @ Mon, 29 Jun 2020 23:39:10: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:39:10: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:39:11: #2 number of paired peaks: 10 WARNING @ Mon, 29 Jun 2020 23:39:11: Too few paired peaks (10) 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 23:39:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.20_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/SRX135528/SRX135528.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135528/SRX135528.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling