Job ID = 3785853 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-11-01T05:35:38 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:35:38 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:35:38 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:35:38 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:35:38 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:35:54 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:36:13 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - mbedtls_ssl_handshake returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:36:13 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - ktls_handshake failed while accessing '130.14.250.26' from '172.19.7.18' 2019-11-01T05:36:13 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - Failed to create TLS stream for 'sra-download.ncbi.nlm.nih.gov' (130.14.250.26) from '172.19.7.18' 2019-11-01T05:37:42 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:38:29 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:39:20 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:39:20 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:39:49 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:40:29 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:40:29 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:41:13 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:42:44 fasterq-dump.2.9.6 sys: error unknown while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:43:32 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:44:42 fasterq-dump.2.9.6 sys: error unknown while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:44:58 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:45:15 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:45:50 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:46:20 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:46:53 fasterq-dump.2.9.6 sys: error unknown while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:47:13 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:47:13 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:47:13 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:49:32 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:50:46 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:52:33 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:53:07 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - mbedtls_ssl_handshake returned -76 ( NET - Reading information from the socket failed ) 2019-11-01T05:53:07 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - ktls_handshake failed while accessing '130.14.250.24' from '172.19.7.18' 2019-11-01T05:53:07 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - Failed to create TLS stream for 'sra-download.ncbi.nlm.nih.gov' (130.14.250.24) from '172.19.7.18' spots read : 18,602,513 reads read : 18,602,513 reads written : 18,602,513 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: 00:04:55 18602513 reads; of these: 18602513 (100.00%) were unpaired; of these: 1748286 (9.40%) aligned 0 times 14022765 (75.38%) aligned exactly 1 time 2831462 (15.22%) aligned >1 times 90.60% overall alignment rate Time searching: 00:04:55 Overall time: 00:04:55 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] 1799157 / 16854227 = 0.1067 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Fri, 01 Nov 2019 15:04:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.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 @ Fri, 01 Nov 2019 15:04:10: #1 read tag files... INFO @ Fri, 01 Nov 2019 15:04:10: #1 read treatment tags... INFO @ Fri, 01 Nov 2019 15:04:17: 1000000 INFO @ Fri, 01 Nov 2019 15:04:25: 2000000 INFO @ Fri, 01 Nov 2019 15:04:32: 3000000 INFO @ Fri, 01 Nov 2019 15:04:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.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 @ Fri, 01 Nov 2019 15:04:38: #1 read tag files... INFO @ Fri, 01 Nov 2019 15:04:38: #1 read treatment tags... INFO @ Fri, 01 Nov 2019 15:04:39: 4000000 INFO @ Fri, 01 Nov 2019 15:04:46: 5000000 INFO @ Fri, 01 Nov 2019 15:04:47: 1000000 INFO @ Fri, 01 Nov 2019 15:04:53: 6000000 INFO @ Fri, 01 Nov 2019 15:04:56: 2000000 INFO @ Fri, 01 Nov 2019 15:05:01: 7000000 INFO @ Fri, 01 Nov 2019 15:05:04: 3000000 BedGraph に変換中... INFO @ Fri, 01 Nov 2019 15:05:08: 8000000 INFO @ Fri, 01 Nov 2019 15:05:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.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 @ Fri, 01 Nov 2019 15:05:08: #1 read tag files... INFO @ Fri, 01 Nov 2019 15:05:08: #1 read treatment tags... INFO @ Fri, 01 Nov 2019 15:05:13: 4000000 INFO @ Fri, 01 Nov 2019 15:05:16: 9000000 INFO @ Fri, 01 Nov 2019 15:05:16: 1000000 INFO @ Fri, 01 Nov 2019 15:05:21: 5000000 INFO @ Fri, 01 Nov 2019 15:05:23: 10000000 INFO @ Fri, 01 Nov 2019 15:05:25: 2000000 INFO @ Fri, 01 Nov 2019 15:05:30: 6000000 INFO @ Fri, 01 Nov 2019 15:05:30: 11000000 INFO @ Fri, 01 Nov 2019 15:05:34: 3000000 INFO @ Fri, 01 Nov 2019 15:05:38: 12000000 INFO @ Fri, 01 Nov 2019 15:05:38: 7000000 INFO @ Fri, 01 Nov 2019 15:05:42: 4000000 INFO @ Fri, 01 Nov 2019 15:05:45: 13000000 INFO @ Fri, 01 Nov 2019 15:05:47: 8000000 INFO @ Fri, 01 Nov 2019 15:05:51: 5000000 INFO @ Fri, 01 Nov 2019 15:05:53: 14000000 INFO @ Fri, 01 Nov 2019 15:05:55: 9000000 INFO @ Fri, 01 Nov 2019 15:06:00: 6000000 INFO @ Fri, 01 Nov 2019 15:06:00: 15000000 INFO @ Fri, 01 Nov 2019 15:06:01: #1 tag size is determined as 50 bps INFO @ Fri, 01 Nov 2019 15:06:01: #1 tag size = 50 INFO @ Fri, 01 Nov 2019 15:06:01: #1 total tags in treatment: 15055070 INFO @ Fri, 01 Nov 2019 15:06:01: #1 user defined the maximum tags... INFO @ Fri, 01 Nov 2019 15:06:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 01 Nov 2019 15:06:01: #1 tags after filtering in treatment: 15055070 INFO @ Fri, 01 Nov 2019 15:06:01: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 01 Nov 2019 15:06:01: #1 finished! INFO @ Fri, 01 Nov 2019 15:06:01: #2 Build Peak Model... INFO @ Fri, 01 Nov 2019 15:06:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 01 Nov 2019 15:06:02: #2 number of paired peaks: 82 WARNING @ Fri, 01 Nov 2019 15:06:02: Too few paired peaks (82) 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 @ Fri, 01 Nov 2019 15:06:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.05_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/SRX5247951/SRX5247951.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 01 Nov 2019 15:06:04: 10000000 INFO @ Fri, 01 Nov 2019 15:06:08: 7000000 INFO @ Fri, 01 Nov 2019 15:06:12: 11000000 INFO @ Fri, 01 Nov 2019 15:06:17: 8000000 INFO @ Fri, 01 Nov 2019 15:06:21: 12000000 INFO @ Fri, 01 Nov 2019 15:06:25: 9000000 INFO @ Fri, 01 Nov 2019 15:06:29: 13000000 INFO @ Fri, 01 Nov 2019 15:06:34: 10000000 INFO @ Fri, 01 Nov 2019 15:06:38: 14000000 INFO @ Fri, 01 Nov 2019 15:06:42: 11000000 INFO @ Fri, 01 Nov 2019 15:06:46: 15000000 INFO @ Fri, 01 Nov 2019 15:06:47: #1 tag size is determined as 50 bps INFO @ Fri, 01 Nov 2019 15:06:47: #1 tag size = 50 INFO @ Fri, 01 Nov 2019 15:06:47: #1 total tags in treatment: 15055070 INFO @ Fri, 01 Nov 2019 15:06:47: #1 user defined the maximum tags... INFO @ Fri, 01 Nov 2019 15:06:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 01 Nov 2019 15:06:47: #1 tags after filtering in treatment: 15055070 INFO @ Fri, 01 Nov 2019 15:06:47: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 01 Nov 2019 15:06:47: #1 finished! INFO @ Fri, 01 Nov 2019 15:06:47: #2 Build Peak Model... INFO @ Fri, 01 Nov 2019 15:06:47: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 01 Nov 2019 15:06:48: #2 number of paired peaks: 82 WARNING @ Fri, 01 Nov 2019 15:06:48: Too few paired peaks (82) 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 @ Fri, 01 Nov 2019 15:06:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 01 Nov 2019 15:06:50: 12000000 INFO @ Fri, 01 Nov 2019 15:06:59: 13000000 INFO @ Fri, 01 Nov 2019 15:07:07: 14000000 INFO @ Fri, 01 Nov 2019 15:07:15: 15000000 INFO @ Fri, 01 Nov 2019 15:07:16: #1 tag size is determined as 50 bps INFO @ Fri, 01 Nov 2019 15:07:16: #1 tag size = 50 INFO @ Fri, 01 Nov 2019 15:07:16: #1 total tags in treatment: 15055070 INFO @ Fri, 01 Nov 2019 15:07:16: #1 user defined the maximum tags... INFO @ Fri, 01 Nov 2019 15:07:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 01 Nov 2019 15:07:16: #1 tags after filtering in treatment: 15055070 INFO @ Fri, 01 Nov 2019 15:07:16: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 01 Nov 2019 15:07:16: #1 finished! INFO @ Fri, 01 Nov 2019 15:07:16: #2 Build Peak Model... INFO @ Fri, 01 Nov 2019 15:07:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 01 Nov 2019 15:07:17: #2 number of paired peaks: 82 WARNING @ Fri, 01 Nov 2019 15:07:17: Too few paired peaks (82) 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 @ Fri, 01 Nov 2019 15:07:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.20_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/SRX5247951/SRX5247951.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5247951/SRX5247951.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。