Miscellaneous |
Version lineage of this tool (guids ordered most recent to oldest) |
toolshed.g2.bx.psu.edu/repos/galaxyp/openms_rtmodel/RTModel/2.6+galaxy0 |
toolshed.g2.bx.psu.edu/repos/galaxyp/openms_rtmodel/RTModel/2.5+galaxy0 (this tool) |
toolshed.g2.bx.psu.edu/repos/galaxyp/openms_rtmodel/RTModel/2.3.0 |
toolshed.g2.bx.psu.edu/repos/galaxyp/openms_rtmodel/RTModel/2.2.0 |
toolshed.g2.bx.psu.edu/repos/galaxyp/openms_rtmodel/RTModel/2.1.0 |
RTModel |
Requirements (dependencies defined in the <requirements> tag set) |
name | version | type |
openms | 2.5 | package |
openms-thirdparty | 2.5 | package |
blast | 2.9.0 | package |
openjdk | 8.0.192 | package |
ctdopts | 1.4 | package |
Functional tests |
name | inputs | outputs | required files |
Test-1 |
in: RTModel_1_input.idXML svm_type: NU_SVR nu: 0.5 p: 0.1 c: 0.1 kernel_type: POLY degree: 1 border_length: 22 max_std: 10.0 k_mer_length: 1 sigma: 5.0 total_gradient_time: 3000.0 first_dim_rt: False additive_cv: False cv|skip_cv: True cv|number_of_runs: 10 cv|number_of_partitions: 10 cv|degree_start: 1 cv|degree_step_size: 2 cv|degree_stop: 4 cv|p_start: 1.0 cv|p_step_size: 10.0 cv|p_stop: 1000.0 cv|c_start: 1.0 cv|c_step_size: 10.0 cv|c_stop: 1000.0 cv|nu_start: 0.3 cv|nu_step_size: 1.2 cv|nu_stop: 0.7 cv|sigma_start: 1.0 cv|sigma_step_size: 1.3 cv|sigma_stop: 15.0 adv_opts_cond|force: False adv_opts_cond|test: true adv_opts_cond|adv_opts_selector: advanced OPTIONAL_OUTPUTS: ctd_out_FLAG |
name: value name: value |
RTModel_1_input.idXML value |
Test-2 |
in_positive: RTModel_2_input_positive.idXML in_negative: RTModel_2_input_negative.idXML svm_type: NU_SVR nu: 0.5 p: 0.1 c: 0.5 kernel_type: OLIGO degree: 1 border_length: 22 max_std: 10.0 k_mer_length: 1 sigma: 5.0 total_gradient_time: 1.0 first_dim_rt: False additive_cv: False cv|skip_cv: True cv|number_of_runs: 10 cv|number_of_partitions: 10 cv|degree_start: 1 cv|degree_step_size: 2 cv|degree_stop: 4 cv|p_start: 1.0 cv|p_step_size: 10.0 cv|p_stop: 1000.0 cv|c_start: 1.0 cv|c_step_size: 10.0 cv|c_stop: 1000.0 cv|nu_start: 0.3 cv|nu_step_size: 1.2 cv|nu_stop: 0.7 cv|sigma_start: 1.0 cv|sigma_step_size: 1.3 cv|sigma_stop: 15.0 adv_opts_cond|force: False adv_opts_cond|test: true adv_opts_cond|adv_opts_selector: advanced OPTIONAL_OUTPUTS: ctd_out_FLAG |
name: value name: value |
RTModel_2_input_positive.idXML RTModel_2_input_negative.idXML value |
Test-3 |
in: RTModel_3_input.idXML svm_type: NU_SVR nu: 0.5 p: 0.1 c: 0.001953125 kernel_type: OLIGO degree: 1 border_length: 22 max_std: 10.0 k_mer_length: 1 sigma: 1.0 total_gradient_time: 1.0 first_dim_rt: False additive_cv: False cv|skip_cv: False cv|number_of_runs: 1 cv|number_of_partitions: 5 cv|degree_start: 1 cv|degree_step_size: 2 cv|degree_stop: 4 cv|p_start: 1.0 cv|p_step_size: 10.0 cv|p_stop: 1000.0 cv|c_start: 0.001953125 cv|c_step_size: 2.0 cv|c_stop: 0.001953125 cv|nu_start: 0.4 cv|nu_step_size: 1.2 cv|nu_stop: 0.4 cv|sigma_start: 5.0 cv|sigma_step_size: 1.221055 cv|sigma_stop: 5.0 adv_opts_cond|force: False adv_opts_cond|test: true adv_opts_cond|adv_opts_selector: advanced OPTIONAL_OUTPUTS: ctd_out_FLAG |
name: value name: value |
RTModel_3_input.idXML value |
Test-4 |
in: RTModel_4_input.txt svm_type: NU_SVR nu: 0.5 p: 0.1 c: 0.001953125 kernel_type: OLIGO degree: 1 border_length: 22 max_std: 10.0 k_mer_length: 1 sigma: 1.0 total_gradient_time: 1.0 first_dim_rt: False additive_cv: False cv|skip_cv: False cv|number_of_runs: 1 cv|number_of_partitions: 5 cv|degree_start: 1 cv|degree_step_size: 2 cv|degree_stop: 4 cv|p_start: 1.0 cv|p_step_size: 10.0 cv|p_stop: 1000.0 cv|c_start: 0.001953125 cv|c_step_size: 2.0 cv|c_stop: 0.001953125 cv|nu_start: 0.4 cv|nu_step_size: 1.2 cv|nu_stop: 0.4 cv|sigma_start: 5.0 cv|sigma_step_size: 1.221055 cv|sigma_stop: 5.0 adv_opts_cond|force: False adv_opts_cond|test: true adv_opts_cond|adv_opts_selector: advanced OPTIONAL_OUTPUTS: ctd_out_FLAG |
name: value name: value |
RTModel_4_input.txt value |