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update results md with description
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stellaprins committed Jan 13, 2025
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Markdown file description goes here.
SBML Test Suite validation and simulation results using Tellurium installed natively and Tellurium and COPASI run remotely through BioSimulators.
|case|valid-sbml|valid-sbml-units|valid-sedml|tellurium|xmlns-sbml-missing|tellurium-remote|copasi-remote|
|---|---|---|---|---|---|---|---|
|n=1821|n_fail=1|n_fail=5|n_fail=0|<details><summary>pass=1578 FAIL=243</summary>n_algebraic=124 n_delay=51 n_<details><summary>skipped</summary>Case is skipped because it leads to a float error when trying to run it in tellurium natively, which leads to reset errors in subsequent cases that would otherwise pass.</details>=14 n_other=44 n_stochiometry=6 n_SpeciesRef=4</details>|n=1821|pass=1543|pass=1688|
|n=1821|n_fail=1|n_fail=5|n_fail=0|<details><summary>pass=1576 FAIL=245</summary>n_algebraic=124 n_delay=51 n_<details><summary>skipped</summary>Case is skipped because it leads to a float error when trying to run it in tellurium natively, which leads to reset errors in subsequent cases that would otherwise pass.</details>=14 n_other=46 n_stochiometry=6 n_SpeciesRef=4</details>|n=1821|pass=1543|pass=1688|
|[00001-sbml-l3v2.xml](https://github.com/sbmlteam/sbml-test-suite/blob/release/cases/semantic\00001-sbml-l3v2.xml)|pass|pass|pass|pass|True|<details><summary>pass</summary>[Download](https://api.biosimulations.org/results/677d1a813e750b90a426019d/download)<br>[Logs](https://api.biosimulations.org/logs/677d1a813e750b90a426019d?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d1a813e750b90a426019d)<br><br>HTTP response: 201|<details><summary>pass</summary>[Download](https://api.biosimulations.org/results/677d1a7ef8016f90e7cb63cd/download)<br>[Logs](https://api.biosimulations.org/logs/677d1a7ef8016f90e7cb63cd?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d1a7ef8016f90e7cb63cd)<br><br>HTTP response: 201|
|[00002-sbml-l3v2.xml](https://github.com/sbmlteam/sbml-test-suite/blob/release/cases/semantic\00002-sbml-l3v2.xml)|pass|pass|pass|pass|True|<details><summary>pass</summary>[Download](https://api.biosimulations.org/results/677d1a8567468f9f3fc57e1b/download)<br>[Logs](https://api.biosimulations.org/logs/677d1a8567468f9f3fc57e1b?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d1a8567468f9f3fc57e1b)<br><br>HTTP response: 201|<details><summary>pass</summary>[Download](https://api.biosimulations.org/results/677d1a83f8016f90e7cb63d1/download)<br>[Logs](https://api.biosimulations.org/logs/677d1a83f8016f90e7cb63d1?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d1a83f8016f90e7cb63d1)<br><br>HTTP response: 201|
|[00003-sbml-l3v2.xml](https://github.com/sbmlteam/sbml-test-suite/blob/release/cases/semantic\00003-sbml-l3v2.xml)|pass|pass|pass|pass|True|<details><summary>pass</summary>[Download](https://api.biosimulations.org/results/677d1a8b3e750b90a42601a5/download)<br>[Logs](https://api.biosimulations.org/logs/677d1a8b3e750b90a42601a5?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d1a8b3e750b90a42601a5)<br><br>HTTP response: 201|<details><summary>pass</summary>[Download](https://api.biosimulations.org/results/677d1a893e750b90a42601a1/download)<br>[Logs](https://api.biosimulations.org/logs/677d1a893e750b90a42601a1?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d1a893e750b90a42601a1)<br><br>HTTP response: 201|
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|[01817-sbml-l3v2.xml](https://github.com/sbmlteam/sbml-test-suite/blob/release/cases/semantic\01817-sbml-l3v2.xml)|pass|pass|pass|<details><summary>other</summary> name 'false' is not defined </details>|True|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677d6a99f8016f90e7cbfd41/download)<br>[Logs](https://api.biosimulations.org/logs/677d6a99f8016f90e7cbfd41?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d6a99f8016f90e7cbfd41)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp444394 is invalid. - Data generator false_1 is invalid. - The mathematical expression false cannot be evaluated. - Variables for mathematical expressions cannot have ids equal to the following reserved symbols: - false ```<br><br>Exception type: ```ValueError```|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677d6a9767468f9f3fc61753/download)<br>[Logs](https://api.biosimulations.org/logs/677d6a9767468f9f3fc61753?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d6a9767468f9f3fc61753)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp259010 is invalid. - Data generator false_1 is invalid. - The mathematical expression false cannot be evaluated. - Variables for mathematical expressions cannot have ids equal to the following reserved symbols: - false ```<br><br>Exception type: ```ValueError```|
|[01818-sbml-l3v2.xml](https://github.com/sbmlteam/sbml-test-suite/blob/release/cases/semantic\01818-sbml-l3v2.xml)|pass|pass|pass|<details><summary>other</summary> 'float' object is not subscriptable </details>|True|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677d6a9e3e750b90a42699e0/download)<br>[Logs](https://api.biosimulations.org/logs/677d6a9e3e750b90a42699e0?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d6a9e3e750b90a42699e0)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp164154 is invalid. - Data generator pi_1 is invalid. - The mathematical expression pi cannot be evaluated. - Variables for mathematical expressions cannot have ids equal to the following reserved symbols: - pi ```<br><br>Exception type: ```ValueError```|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677d6a9c67468f9f3fc6177b/download)<br>[Logs](https://api.biosimulations.org/logs/677d6a9c67468f9f3fc6177b?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d6a9c67468f9f3fc6177b)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp771429 is invalid. - Data generator pi_1 is invalid. - The mathematical expression pi cannot be evaluated. - Variables for mathematical expressions cannot have ids equal to the following reserved symbols: - pi ```<br><br>Exception type: ```ValueError```|
|[01819-sbml-l3v2.xml](https://github.com/sbmlteam/sbml-test-suite/blob/release/cases/semantic\01819-sbml-l3v2.xml)|pass|pass|pass|<details><summary>other</summary> 'float' object is not subscriptable </details>|True|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677d6aa4f8016f90e7cbfd70/download)<br>[Logs](https://api.biosimulations.org/logs/677d6aa4f8016f90e7cbfd70?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d6aa4f8016f90e7cbfd70)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp80392 is invalid. - Data generator pi_1 is invalid. - The mathematical expression pi cannot be evaluated. - Variables for mathematical expressions cannot have ids equal to the following reserved symbols: - pi ```<br><br>Exception type: ```ValueError```|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677d6aa167468f9f3fc61787/download)<br>[Logs](https://api.biosimulations.org/logs/677d6aa167468f9f3fc61787?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d6aa167468f9f3fc61787)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp917496 is invalid. - Data generator pi_1 is invalid. - The mathematical expression pi cannot be evaluated. - Variables for mathematical expressions cannot have ids equal to the following reserved symbols: - pi ```<br><br>Exception type: ```ValueError```|
|[01820-sbml-l3v2.xml](https://github.com/sbmlteam/sbml-test-suite/blob/release/cases/semantic\01820-sbml-l3v2.xml)|pass|pass|pass|pass|True|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677e71e83e750b90a426a2c0/download)<br>[Logs](https://api.biosimulations.org/logs/677e71e83e750b90a426a2c0?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677e71e83e750b90a426a2c0)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp719891 is invalid. - Each identified SED object must have a unique id. Multiple objects have the following ids: - time```<br><br>Exception type: ```ValueError```|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677e71e667468f9f3fc62037/download)<br>[Logs](https://api.biosimulations.org/logs/677e71e667468f9f3fc62037?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677e71e667468f9f3fc62037)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp139699 is invalid. - Each identified SED object must have a unique id. Multiple objects have the following ids: - time```<br><br>Exception type: ```ValueError```|
|[01821-sbml-l3v2.xml](https://github.com/sbmlteam/sbml-test-suite/blob/release/cases/semantic\01821-sbml-l3v2.xml)|pass|pass|pass|pass|True|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677d6aaf67468f9f3fc617bd/download)<br>[Logs](https://api.biosimulations.org/logs/677d6aaf67468f9f3fc617bd?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d6aaf67468f9f3fc617bd)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp454022 is invalid. - Each identified SED object must have a unique id. Multiple objects have the following ids: - time```<br><br>Exception type: ```ValueError```|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677d6aad3e750b90a4269a17/download)<br>[Logs](https://api.biosimulations.org/logs/677d6aad3e750b90a4269a17?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d6aad3e750b90a4269a17)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp684479 is invalid. - Each identified SED object must have a unique id. Multiple objects have the following ids: - time```<br><br>Exception type: ```ValueError```|
|[01820-sbml-l3v2.xml](https://github.com/sbmlteam/sbml-test-suite/blob/release/cases/semantic\01820-sbml-l3v2.xml)|pass|pass|pass|<details><summary>other</summary> only integers, slices ( : ), ellipsis ( ... ), numpy.newaxis ( None ) and integer or boolean arrays are valid indices </details>|True|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677e71e83e750b90a426a2c0/download)<br>[Logs](https://api.biosimulations.org/logs/677e71e83e750b90a426a2c0?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677e71e83e750b90a426a2c0)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp719891 is invalid. - Each identified SED object must have a unique id. Multiple objects have the following ids: - time```<br><br>Exception type: ```ValueError```|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677e71e667468f9f3fc62037/download)<br>[Logs](https://api.biosimulations.org/logs/677e71e667468f9f3fc62037?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677e71e667468f9f3fc62037)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp139699 is invalid. - Each identified SED object must have a unique id. Multiple objects have the following ids: - time```<br><br>Exception type: ```ValueError```|
|[01821-sbml-l3v2.xml](https://github.com/sbmlteam/sbml-test-suite/blob/release/cases/semantic\01821-sbml-l3v2.xml)|pass|pass|pass|<details><summary>other</summary> only integers, slices ( : ), ellipsis ( ... ), numpy.newaxis ( None ) and integer or boolean arrays are valid indices </details>|True|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677d6aaf67468f9f3fc617bd/download)<br>[Logs](https://api.biosimulations.org/logs/677d6aaf67468f9f3fc617bd?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d6aaf67468f9f3fc617bd)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp454022 is invalid. - Each identified SED object must have a unique id. Multiple objects have the following ids: - time```<br><br>Exception type: ```ValueError```|<details><summary>FAIL</summary>[Download](https://api.biosimulations.org/results/677d6aad3e750b90a4269a17/download)<br>[Logs](https://api.biosimulations.org/logs/677d6aad3e750b90a4269a17?includeOutput=true)<br>[View](https://api.biosimulations.org/runs/677d6aad3e750b90a4269a17)<br><br>HTTP response: 201<br><br>Error message: ``` /root/archive.omex is not a valid COMBINE/OMEX archive. - The SED-ML file at location ./tmp684479 is invalid. - Each identified SED object must have a unique id. Multiple objects have the following ids: - time```<br><br>Exception type: ```ValueError```|

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