Job ID = 6528437 SRX = SRX645134 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:04:43 prefetch.2.10.7 int: connection failed while opening file within cryptographic module - cannot open remote file: https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos1/sra-pub-run-5/SRR1505734/SRR1505734.1 2020-06-29T15:04:51 prefetch.2.10.7: 1) Downloading 'SRR1505734'... 2020-06-29T15:04:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:31:01 prefetch.2.10.7: HTTPS download failed 2020-06-29T15:31:01 prefetch.2.10.7: 1) failed to download SRR1505734 2020-06-29T15:31:15 prefetch.2.10.7: 1) Downloading 'SRR1505734'... 2020-06-29T15:31:15 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:31:15 prefetch.2.10.7: Continue download of 'SRR1505734' from 4217857380 2020-06-29T15:31:23 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:31:23 prefetch.2.10.7: 1) 'SRR1505734' was downloaded successfully Read 61600257 spots for SRR1505734/SRR1505734.sra Written 61600257 spots for SRR1505734/SRR1505734.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:22:19 61600257 reads; of these: 61600257 (100.00%) were unpaired; of these: 36677985 (59.54%) aligned 0 times 18233264 (29.60%) aligned exactly 1 time 6689008 (10.86%) aligned >1 times 40.46% overall alignment rate Time searching: 00:22:20 Overall time: 00:22:20 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] 2329689 / 24922272 = 0.0935 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 @ Tue, 30 Jun 2020 01:35:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.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 @ Tue, 30 Jun 2020 01:35:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:35:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:35:31: 1000000 INFO @ Tue, 30 Jun 2020 01:35:38: 2000000 INFO @ Tue, 30 Jun 2020 01:35:44: 3000000 INFO @ Tue, 30 Jun 2020 01:35:51: 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 @ Tue, 30 Jun 2020 01:35:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.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 @ Tue, 30 Jun 2020 01:35:55: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:35:55: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:35:57: 5000000 INFO @ Tue, 30 Jun 2020 01:36:02: 1000000 INFO @ Tue, 30 Jun 2020 01:36:04: 6000000 INFO @ Tue, 30 Jun 2020 01:36:09: 2000000 INFO @ Tue, 30 Jun 2020 01:36:11: 7000000 INFO @ Tue, 30 Jun 2020 01:36:16: 3000000 INFO @ Tue, 30 Jun 2020 01:36:18: 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 @ Tue, 30 Jun 2020 01:36:23: 4000000 INFO @ Tue, 30 Jun 2020 01:36:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.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 @ Tue, 30 Jun 2020 01:36:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:36:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:36:25: 9000000 INFO @ Tue, 30 Jun 2020 01:36:30: 5000000 INFO @ Tue, 30 Jun 2020 01:36:32: 1000000 INFO @ Tue, 30 Jun 2020 01:36:33: 10000000 INFO @ Tue, 30 Jun 2020 01:36:37: 6000000 INFO @ Tue, 30 Jun 2020 01:36:39: 2000000 INFO @ Tue, 30 Jun 2020 01:36:40: 11000000 INFO @ Tue, 30 Jun 2020 01:36:44: 7000000 INFO @ Tue, 30 Jun 2020 01:36:46: 3000000 INFO @ Tue, 30 Jun 2020 01:36:47: 12000000 INFO @ Tue, 30 Jun 2020 01:36:51: 8000000 INFO @ Tue, 30 Jun 2020 01:36:53: 4000000 INFO @ Tue, 30 Jun 2020 01:36:54: 13000000 INFO @ Tue, 30 Jun 2020 01:36:59: 9000000 INFO @ Tue, 30 Jun 2020 01:37:00: 5000000 INFO @ Tue, 30 Jun 2020 01:37:01: 14000000 INFO @ Tue, 30 Jun 2020 01:37:06: 10000000 INFO @ Tue, 30 Jun 2020 01:37:08: 6000000 INFO @ Tue, 30 Jun 2020 01:37:09: 15000000 INFO @ Tue, 30 Jun 2020 01:37:13: 11000000 INFO @ Tue, 30 Jun 2020 01:37:15: 7000000 INFO @ Tue, 30 Jun 2020 01:37:16: 16000000 INFO @ Tue, 30 Jun 2020 01:37:21: 12000000 INFO @ Tue, 30 Jun 2020 01:37:23: 8000000 INFO @ Tue, 30 Jun 2020 01:37:24: 17000000 INFO @ Tue, 30 Jun 2020 01:37:28: 13000000 INFO @ Tue, 30 Jun 2020 01:37:30: 9000000 INFO @ Tue, 30 Jun 2020 01:37:31: 18000000 INFO @ Tue, 30 Jun 2020 01:37:36: 14000000 INFO @ Tue, 30 Jun 2020 01:37:38: 10000000 INFO @ Tue, 30 Jun 2020 01:37:38: 19000000 INFO @ Tue, 30 Jun 2020 01:37:43: 15000000 INFO @ Tue, 30 Jun 2020 01:37:45: 11000000 INFO @ Tue, 30 Jun 2020 01:37:46: 20000000 INFO @ Tue, 30 Jun 2020 01:37:50: 16000000 INFO @ Tue, 30 Jun 2020 01:37:52: 12000000 INFO @ Tue, 30 Jun 2020 01:37:53: 21000000 INFO @ Tue, 30 Jun 2020 01:37:58: 17000000 INFO @ Tue, 30 Jun 2020 01:38:00: 13000000 INFO @ Tue, 30 Jun 2020 01:38:00: 22000000 INFO @ Tue, 30 Jun 2020 01:38:04: #1 tag size is determined as 100 bps INFO @ Tue, 30 Jun 2020 01:38:04: #1 tag size = 100 INFO @ Tue, 30 Jun 2020 01:38:04: #1 total tags in treatment: 22592583 INFO @ Tue, 30 Jun 2020 01:38:04: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:38:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:38:05: #1 tags after filtering in treatment: 22592583 INFO @ Tue, 30 Jun 2020 01:38:05: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:38:05: #1 finished! INFO @ Tue, 30 Jun 2020 01:38:05: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:38:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:38:05: 18000000 INFO @ Tue, 30 Jun 2020 01:38:06: #2 number of paired peaks: 11 WARNING @ Tue, 30 Jun 2020 01:38:06: Too few paired peaks (11) 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 @ Tue, 30 Jun 2020 01:38:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.05_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/SRX645134/SRX645134.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:38:07: 14000000 INFO @ Tue, 30 Jun 2020 01:38:12: 19000000 INFO @ Tue, 30 Jun 2020 01:38:14: 15000000 INFO @ Tue, 30 Jun 2020 01:38:19: 20000000 INFO @ Tue, 30 Jun 2020 01:38:21: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:38:26: 21000000 INFO @ Tue, 30 Jun 2020 01:38:29: 17000000 INFO @ Tue, 30 Jun 2020 01:38:33: 22000000 INFO @ Tue, 30 Jun 2020 01:38:36: 18000000 INFO @ Tue, 30 Jun 2020 01:38:38: #1 tag size is determined as 100 bps INFO @ Tue, 30 Jun 2020 01:38:38: #1 tag size = 100 INFO @ Tue, 30 Jun 2020 01:38:38: #1 total tags in treatment: 22592583 INFO @ Tue, 30 Jun 2020 01:38:38: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:38:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:38:38: #1 tags after filtering in treatment: 22592583 INFO @ Tue, 30 Jun 2020 01:38:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:38:38: #1 finished! INFO @ Tue, 30 Jun 2020 01:38:38: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:38:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:38:39: #2 number of paired peaks: 11 WARNING @ Tue, 30 Jun 2020 01:38:39: Too few paired peaks (11) 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 @ Tue, 30 Jun 2020 01:38:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.10_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/dm3/SRX645134/SRX645134.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:38:43: 19000000 INFO @ Tue, 30 Jun 2020 01:38:50: 20000000 INFO @ Tue, 30 Jun 2020 01:38:56: 21000000 INFO @ Tue, 30 Jun 2020 01:39:03: 22000000 INFO @ Tue, 30 Jun 2020 01:39:07: #1 tag size is determined as 100 bps INFO @ Tue, 30 Jun 2020 01:39:07: #1 tag size = 100 INFO @ Tue, 30 Jun 2020 01:39:07: #1 total tags in treatment: 22592583 INFO @ Tue, 30 Jun 2020 01:39:07: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:39:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:39:08: #1 tags after filtering in treatment: 22592583 INFO @ Tue, 30 Jun 2020 01:39:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:39:08: #1 finished! INFO @ Tue, 30 Jun 2020 01:39:08: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:39:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:39:09: #2 number of paired peaks: 11 WARNING @ Tue, 30 Jun 2020 01:39:09: Too few paired peaks (11) 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 @ Tue, 30 Jun 2020 01:39:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.20_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/SRX645134/SRX645134.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX645134/SRX645134.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。