Hi,
I installed the latest version of SEAStAR from github, the installation steps proceed okay, however, running make test gives the following error:
Running tests...
Test project /home/senthil/git_repos/SEAStAR
Start 13: ref_select_runs
1/24 Test #13: ref_select_runs ..................... Passed 0.00 sec
Start 24: RDP_train_to_heirarchy_test_data
2/24 Test #24: RDP_train_to_heirarchy_test_data .... Passed 0.03 sec
Start 23: fix_fasta_line_lengths_test_data
3/24 Test #23: fix_fasta_line_lengths_test_data ....***Failed Required regular expression not found.Regex=[8c8d7485d2e86c55e89b92cdbd15f9fc
] 0.00 sec
Start 22: graph_ops_scaffolding_test_data
4/24 Test #22: graph_ops_scaffolding_test_data .....***Failed Required regular expression not found.Regex=[c07eb882a4ff3a3d00937ae261c41ea0
] 0.05 sec
Start 21: csfasta2ntfasta_test_data
5/24 Test #21: csfasta2ntfasta_test_data ...........***Failed Required regular expression not found.Regex=[185357ad83ec46928edfcc225bcde638
] 0.05 sec
Start 20: csfasta2fasta_paired_test_data
6/24 Test #20: csfasta2fasta_paired_test_data ......***Failed Required regular expression not found.Regex=[587dcdfa4b69f2422172235fb63faf2a
] 0.00 sec
Start 19: csfasta2fasta_test_data
7/24 Test #19: csfasta2fasta_test_data .............***Failed Required regular expression not found.Regex=[b3138e9d395a2ac59e8861b617f8f184
] 0.00 sec
Start 18: fastq2csfasta_test_data
8/24 Test #18: fastq2csfasta_test_data .............***Failed Required regular expression not found.Regex=[9d93279bbd578cbb88d74755d20ee357
] 0.01 sec
Start 17: tetracalc_test_data
9/24 Test #17: tetracalc_test_data ................. Passed 0.07 sec
Start 16: tetracalc_runs
10/24 Test #16: tetracalc_runs ...................... Passed 0.00 sec
Start 15: ref_select_test_data_no_cat
11/24 Test #15: ref_select_test_data_no_cat .........***Failed Required regular expression not found.Regex=[39cfeb91807617ca50f2d8c25a8982f2
] 0.00 sec
Start 14: ref_select_test_data
12/24 Test #14: ref_select_test_data ................***Failed Required regular expression not found.Regex=[49c3c84716be3120716f48c7ae335906
] 0.00 sec
Start 1: solid2fastq_runs
13/24 Test #1: solid2fastq_runs .................... Passed 0.00 sec
Start 12: samplefastq_test_data
14/24 Test #12: samplefastq_test_data ...............***Failed Required regular expression not found.Regex=[e1a7c29691a8542449dcf06c575c3e02
] 0.02 sec
Start 11: samplefastq_runs
15/24 Test #11: samplefastq_runs .................... Passed 0.00 sec
Start 10: trimfastq_singlet_input_test_data
16/24 Test #10: trimfastq_singlet_input_test_data ...***Failed Required regular expression not found.Regex=[df84824a396d016689ca7a0e35085a15
] 0.01 sec
Start 9: trimfastq_2singlets_test_data
17/24 Test #9: trimfastq_2singlets_test_data .......***Failed Required regular expression not found.Regex=[487481a8b4156040d98295080d5064fa
] 0.01 sec
Start 8: trimfastq_test_data
18/24 Test #8: trimfastq_test_data .................***Failed Required regular expression not found.Regex=[61eb67ca4b9458ef260e9fe19b4a09fb
] 0.01 sec
Start 7: trimfastq_runs
19/24 Test #7: trimfastq_runs ...................... Passed 0.00 sec
Start 6: fastq_nodup_test_data
20/24 Test #6: fastq_nodup_test_data ............... Passed 1.83 sec
Start 5: fastq_nodup_runs
21/24 Test #5: fastq_nodup_runs .................... Passed 0.00 sec
Start 4: solid2fastq_nt_input_test_data
22/24 Test #4: solid2fastq_nt_input_test_data ...... Passed 2.42 sec
Start 3: solid2fastq_test_no_suffix
23/24 Test #3: solid2fastq_test_no_suffix .......... Passed 1.29 sec
Start 2: solid2fastq_test_data
24/24 Test #2: solid2fastq_test_data ............... Passed 1.33 sec
50% tests passed, 12 tests failed out of 24
Total Test time (real) = 7.17 sec
The following tests FAILED:
23 - fix_fasta_line_lengths_test_data (Failed)
22 - graph_ops_scaffolding_test_data (Failed)
21 - csfasta2ntfasta_test_data (Failed)
20 - csfasta2fasta_paired_test_data (Failed)
19 - csfasta2fasta_test_data (Failed)
18 - fastq2csfasta_test_data (Failed)
15 - ref_select_test_data_no_cat (Failed)
14 - ref_select_test_data (Failed)
12 - samplefastq_test_data (Failed)
10 - trimfastq_singlet_input_test_data (Failed)
9 - trimfastq_2singlets_test_data (Failed)
8 - trimfastq_test_data (Failed)
Errors while running CTest
make: *** [test] Error 8
$ uname -a
Linux deepthought 2.6.37.6 #3 SMP Sat Apr 9 22:49:32 CDT 2011 x86_64 Intel(R) Core(TM) i7-2600K CPU @ 3.40GHz GenuineIntel GNU/LinuxCan you please tell me what is wrong? I have the prerequisites installed (gcc, cmake, gawk, node.js) and they are in PATH.
Thank you,
Sen
Hi,
I installed the latest version of SEAStAR from github, the installation steps proceed okay, however, running make test gives the following error:
Running tests... Test project /home/senthil/git_repos/SEAStAR Start 13: ref_select_runs 1/24 Test #13: ref_select_runs ..................... Passed 0.00 sec Start 24: RDP_train_to_heirarchy_test_data 2/24 Test #24: RDP_train_to_heirarchy_test_data .... Passed 0.03 sec Start 23: fix_fasta_line_lengths_test_data 3/24 Test #23: fix_fasta_line_lengths_test_data ....***Failed Required regular expression not found.Regex=[8c8d7485d2e86c55e89b92cdbd15f9fc ] 0.00 sec Start 22: graph_ops_scaffolding_test_data 4/24 Test #22: graph_ops_scaffolding_test_data .....***Failed Required regular expression not found.Regex=[c07eb882a4ff3a3d00937ae261c41ea0 ] 0.05 sec Start 21: csfasta2ntfasta_test_data 5/24 Test #21: csfasta2ntfasta_test_data ...........***Failed Required regular expression not found.Regex=[185357ad83ec46928edfcc225bcde638 ] 0.05 sec Start 20: csfasta2fasta_paired_test_data 6/24 Test #20: csfasta2fasta_paired_test_data ......***Failed Required regular expression not found.Regex=[587dcdfa4b69f2422172235fb63faf2a ] 0.00 sec Start 19: csfasta2fasta_test_data 7/24 Test #19: csfasta2fasta_test_data .............***Failed Required regular expression not found.Regex=[b3138e9d395a2ac59e8861b617f8f184 ] 0.00 sec Start 18: fastq2csfasta_test_data 8/24 Test #18: fastq2csfasta_test_data .............***Failed Required regular expression not found.Regex=[9d93279bbd578cbb88d74755d20ee357 ] 0.01 sec Start 17: tetracalc_test_data 9/24 Test #17: tetracalc_test_data ................. Passed 0.07 sec Start 16: tetracalc_runs 10/24 Test #16: tetracalc_runs ...................... Passed 0.00 sec Start 15: ref_select_test_data_no_cat 11/24 Test #15: ref_select_test_data_no_cat .........***Failed Required regular expression not found.Regex=[39cfeb91807617ca50f2d8c25a8982f2 ] 0.00 sec Start 14: ref_select_test_data 12/24 Test #14: ref_select_test_data ................***Failed Required regular expression not found.Regex=[49c3c84716be3120716f48c7ae335906 ] 0.00 sec Start 1: solid2fastq_runs 13/24 Test #1: solid2fastq_runs .................... Passed 0.00 sec Start 12: samplefastq_test_data 14/24 Test #12: samplefastq_test_data ...............***Failed Required regular expression not found.Regex=[e1a7c29691a8542449dcf06c575c3e02 ] 0.02 sec Start 11: samplefastq_runs 15/24 Test #11: samplefastq_runs .................... Passed 0.00 sec Start 10: trimfastq_singlet_input_test_data 16/24 Test #10: trimfastq_singlet_input_test_data ...***Failed Required regular expression not found.Regex=[df84824a396d016689ca7a0e35085a15 ] 0.01 sec Start 9: trimfastq_2singlets_test_data 17/24 Test #9: trimfastq_2singlets_test_data .......***Failed Required regular expression not found.Regex=[487481a8b4156040d98295080d5064fa ] 0.01 sec Start 8: trimfastq_test_data 18/24 Test #8: trimfastq_test_data .................***Failed Required regular expression not found.Regex=[61eb67ca4b9458ef260e9fe19b4a09fb ] 0.01 sec Start 7: trimfastq_runs 19/24 Test #7: trimfastq_runs ...................... Passed 0.00 sec Start 6: fastq_nodup_test_data 20/24 Test #6: fastq_nodup_test_data ............... Passed 1.83 sec Start 5: fastq_nodup_runs 21/24 Test #5: fastq_nodup_runs .................... Passed 0.00 sec Start 4: solid2fastq_nt_input_test_data 22/24 Test #4: solid2fastq_nt_input_test_data ...... Passed 2.42 sec Start 3: solid2fastq_test_no_suffix 23/24 Test #3: solid2fastq_test_no_suffix .......... Passed 1.29 sec Start 2: solid2fastq_test_data 24/24 Test #2: solid2fastq_test_data ............... Passed 1.33 sec 50% tests passed, 12 tests failed out of 24 Total Test time (real) = 7.17 sec The following tests FAILED: 23 - fix_fasta_line_lengths_test_data (Failed) 22 - graph_ops_scaffolding_test_data (Failed) 21 - csfasta2ntfasta_test_data (Failed) 20 - csfasta2fasta_paired_test_data (Failed) 19 - csfasta2fasta_test_data (Failed) 18 - fastq2csfasta_test_data (Failed) 15 - ref_select_test_data_no_cat (Failed) 14 - ref_select_test_data (Failed) 12 - samplefastq_test_data (Failed) 10 - trimfastq_singlet_input_test_data (Failed) 9 - trimfastq_2singlets_test_data (Failed) 8 - trimfastq_test_data (Failed) Errors while running CTest make: *** [test] Error 8 $ uname -a Linux deepthought 2.6.37.6 #3 SMP Sat Apr 9 22:49:32 CDT 2011 x86_64 Intel(R) Core(TM) i7-2600K CPU @ 3.40GHz GenuineIntel GNU/LinuxCan you please tell me what is wrong? I have the prerequisites installed (gcc, cmake, gawk, node.js) and they are in PATH.
Thank you,
Sen