Allow user to omit credentials.

Use could use `float login` to generate the credentials file. In this case, the credentials are not required in the nextflow configuration file.
MemVerge · Oct 7, 2023 · a1507e3 · a1507e3
1 parent 0036d96
commit a1507e3
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Showing 5 changed files with 28 additions and 17 deletions.
diff --git a/plugins/nf-float/src/main/com/memverge/nextflow/FloatBin.groovy b/plugins/nf-float/src/main/com/memverge/nextflow/FloatBin.groovy
@@ -23,6 +23,7 @@ class FloatBin {
             final Path pluginsDir = Global.getPluginsDir()
             ret = pluginsDir.resolve(binName)
             try {
+                log.info "try downloading $src to $ret"
                 Global.download(src, ret)
                 ret.setExecutable(true)
             } catch (Exception ex) {
@@ -51,6 +52,7 @@ class FloatBin {
         for (String path : paths) {
             def floatPath = Paths.get(path).resolve(binName)
             if (Files.exists(floatPath)) {
+                log.info "found float binary in $path"
                 return floatPath
             }
         }

diff --git a/plugins/nf-float/src/main/com/memverge/nextflow/FloatConf.groovy b/plugins/nf-float/src/main/com/memverge/nextflow/FloatConf.groovy
@@ -37,7 +37,7 @@ class FloatConf {
     static final String NF_RUN_NAME = 'nextflow-io-run-name'
     static final String NF_SESSION_ID = 'nextflow-io-session-id'
     static final String NF_TASK_NAME = 'nextflow-io-task-name'
-    static final String NF_INPUT_SIZE = 'nextflow-io-input-size'
+    static final String NF_INPUT_SIZE = 'input-size'
 
     /** credentials for op center */
     String username
@@ -195,12 +195,6 @@ class FloatConf {
     }
 
     void validate() {
-        if (!username) {
-            throw new AbortOperationException("missing MMCE username")
-        }
-        if (!password) {
-            throw new AbortOperationException("missing MMCE password")
-        }
         if (addresses.size() == 0) {
             throw new AbortOperationException("missing MMCE OC address")
         }
@@ -215,12 +209,13 @@ class FloatConf {
         List<String> ret = [
                 bin.toString(),
                 "-a",
-                address,
-                "-u",
-                username,
-                "-p",
-                password
-        ]
+                address]
+        if (username && password) {
+            ret.addAll(["-u",
+                        username,
+                        "-p",
+                        password])
+        }
         return ret
     }
 

diff --git a/plugins/nf-float/src/main/com/memverge/nextflow/FloatGridExecutor.groovy b/plugins/nf-float/src/main/com/memverge/nextflow/FloatGridExecutor.groovy
@@ -328,11 +328,13 @@ class FloatGridExecutor extends AbstractGridExecutor {
             throw new AbortOperationException("container is empty. " +
                     "you can specify a default container image " +
                     "with `process.container`")
+        } else {
+            log.info("got container image of the task ${container}")
         }
         def cmd = getSubmitCmdPrefix(task.index)
         cmd << 'submit'
         getMountVols(task).forEach { cmd << '--dataVolume' << it }
-        cmd << '--image' << task.getContainer()
+        cmd << '--image' << container
         cmd << '--cpu' << getCpu(task).toString()
         cmd << '--mem' << getMemory(task)
         cmd << '--job' << getScriptFilePath(handler, scriptFile)

diff --git a/plugins/nf-float/src/main/com/memverge/nextflow/Global.groovy b/plugins/nf-float/src/main/com/memverge/nextflow/Global.groovy
@@ -98,7 +98,7 @@ class Global {
                 }
             }
         }
-        log.info "download ${url} to ${filename}"
+        log.info "downloaded ${url} to ${filename}"
         // restore the factory and verifier
         HttpsURLConnection.setDefaultSSLSocketFactory(dftFactory)
         HttpsURLConnection.setDefaultHostnameVerifier(dftVerifier)

diff --git a/plugins/nf-float/src/test/com/memverge/nextflow/FloatConfTest.groovy b/plugins/nf-float/src/test/com/memverge/nextflow/FloatConfTest.groovy
@@ -90,10 +90,10 @@ class FloatConfTest extends BaseTest {
                 "-u admin -p password"
     }
 
-    def "credentials are required"() {
+    def "address is required"() {
         given:
         def conf = [
-                float: [address: '1.2.3.4']]
+                float: [username: 'admin']]
 
         when:
         def fConf = FloatConf.getConf(conf)
@@ -103,6 +103,18 @@ class FloatConfTest extends BaseTest {
         thrown AbortOperationException
     }
 
+    def "credentials are optional"() {
+        given:
+        def conf = [float:[address:"1.2.3.4"]]
+
+        when:
+        def fConf = FloatConf.getConf(conf)
+        fConf.validate()
+
+        then:
+        fConf.getCliPrefix().join(' ').endsWith('float -a 1.2.3.4')
+    }
+
     def "get s3 data volume"() {
         given:
         def conf = [