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kundajelab / chipseq_pipeline

AQUAS TF and histone ChIP-seq pipeline
BSD 3-Clause "New" or "Revised" License
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Fatal error: /data/fmao/soft/chipseq_pipeline/modules/graphviz.bds, line 126, pos 18. Trying to access element number 1 from list 'etc' (list size: 1). #9

Closed maofengbiao closed 6 years ago

maofengbiao commented 8 years ago

Final parameter values: [0.86 1.24 0.53 0.01] Number of reported peaks - 24706/24706 (100.0%)

Number of peaks passing IDR cutoff of 0.05 - 7/24706 (0.0%)

Task has finished (119 seconds). 62944 (process ID) old priority 0, new priority 0 Task has finished (0 seconds).

== Done do_idr() 63010 (process ID) old priority 0, new priority 0 63265 (process ID) old priority 0, new priority 0 Fatal error: /data/fmao/soft/chipseq_pipeline/modules/graphviz.bds, line 126, pos 18. Trying to access element number 1 from list 'etc' (list size: 1). chipseq.bds, line 67 : main() chipseq.bds, line 70 : void main() { // chipseq pipeline starts here chipseq.bds, line 92 : report() chipseq.bds, line 1204 : void report() { chipseq.bds, line 1211 : html += html_graph() // graphviz workflow diagram graphviz.bds, line 83 : string html_graph() { // graph diagram graphviz.bds, line 90 : dot := _make_dot("$rpt_aux_dir/$prefix"+"workflow.dot") graphviz.bds, line 108 : string _make_dot( string file ) { graphviz.bds, line 120 : for ( int k=0; k<_tmp_in.size(); k++ ) { graphviz.bds, line 126 : box_name := etc[1]

Creating checkpoint file: Config or command line option disabled checkpoint file creation, nothing done.

leepc12 commented 7 years ago

Sorry for late response, can you check your BDS version? You need to install BDS from the forked repo. The official BDS does not work properly with the pipeline.

https://github.com/kundajelab/chipseq_pipeline#bigdatascript